CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 219

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF3a219L219FnonsynttGttT263726330.99848326047-26049
ORF3a219L219FnonsynttGttC263740.0015168826047-26049
ORF3a219L219LsynttGttA9746130.62936326047-26049
ORF3a219L219LsynTtgCtg9743610.37063726047-26049
ORF3a219L219VnonsynTtgGtg5064810.95059326047-26049
ORF3a219L219VnonsynTtGGtT506250.049407126047-26049
ORF3a219L219SnonsyntTgtCg1161120.96551726047-26049
ORF3a219L219SnonsyntTGtCT11640.034482826047-26049
ORF3a219L219deldelTTG---2424126047-26049
ORF3a219L219WnonsyntTgtGg99126047-26049
ORF3a219L219KnonsynTTgAAg530.626047-26049
ORF3a219L219KnonsynTTGAAA520.426047-26049
ORF3a219L219RnonsynTTGCGA33126047-26049
ORF3a219L219PnonsynTTGCCA22126047-26049
ORF3a219L219QnonsynTTGCAA22126047-26049
ORF3a219L219TnonsynTTGACA22126047-26049
ORF3a219L219MnonsynTtgAtg11126047-26049
ORF3a219L219InonsynTtGAtA11126047-26049
ORF3a219L219XnonsyntTgtAg11126047-26049

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF3a219L219FttGttT26332637All0.000504
ORF3a219L219FttGttC42637All0.000001
ORF3a219L219FttGttT15801580AY.260.04473
ORF3a219L219LttGttA613974All0.000117
ORF3a219L219LTtgCtg361974All0.000069
ORF3a219L219LttGttA533543B.1.1.70.000477
ORF3a219L219LTtgCtg10543B.1.1.70.000009
ORF3a219L219VTtgGtg481506All0.000092
ORF3a219L219VTtGGtT25506All0.000005
ORF3a219L219VTtgGtg379404B.1.1.3740.900238
ORF3a219L219VTtGGtT25404B.1.1.3740.059382
ORF3a219L219FttGttT217217B.1.617.20.000817
ORF3a219L219FttGttT185185B.1.1.70.000166
ORF3a219L219FttGttT144144B.1.1.370.027772
ORF3a219L219LTtgCtg132132AY.240.056897
ORF3a219L219StTgtCg112116All0.000021
ORF3a219L219StTGtCT4116All0.000001
ORF3a219L219FttGttT6868B.1.10.001234
ORF3a219L219LTtgCtg6467AY.40.0001
ORF3a219L219LttGttA367AY.40.000005
ORF3a219L219FttGttT5858B.1.20.000511
ORF3a219L219LTtgCtg3535AY.420.001408
ORF3a219L219FttGttT3030P.1.40.029297
ORF3a219L219StTgtCg2929AY.40.000045
ORF3a219L219FttGttT2828AY.430.000124
ORF3a219L219FttGttT2626B.1.1770.000342
ORF3a219L219FttGttT2626B.1.5260.000611
ORF3a219L219delTTG---2424All0.000005
ORF3a219L219FttGttT2121AY.390.000519
ORF3a219L219FttGttT1819AY.1030.000112
ORF3a219L219FttGttC119AY.1030.000006
ORF3a219L219LTtgCtg1819AY.250.000108
ORF3a219L219LttGttA119AY.250.000006
ORF3a219L219FttGttT1919AY.40.00003
ORF3a219L219StTgtCg1919B.1.6370.001388
ORF3a219L219FttGttT1515B.1.1600.000468
ORF3a219L219LttGttA1515P.1.170.002426
ORF3a219L219FttGttT1414AY.1130.001993
ORF3a219L219FttGttT1212AY.250.000072
ORF3a219L219FttGttT1212B.10.00011
ORF3a219L219FttGttT1111AY.4.20.000239
ORF3a219L219FttGttT1111AY.440.000067
ORF3a219L219LTtgCtg1111AY.690.002053
ORF3a219L219VTtgGtg1111B.10.000101
ORF3a219L219StTgtCg1010B.1.1.70.000009
ORF3a219L219LttGttA1010B.1.6370.000731
ORF3a219L219VTtgGtg1010B.1.80.019724
ORF3a219L219WtTgtGg99All0.000002
ORF3a219L219FttGttT99AY.9.20.000331
ORF3a219L219VTtgGtg99B.1.10.000163
ORF3a219L219VTtgGtg99B.1.1.120.067164
ORF3a219L219FttGttT88AY.1140.001849
ORF3a219L219LTtgCtg88AY.440.000049
ORF3a219L219LttGttA88B.10.000073
ORF3a219L219LTtgCtg68P.10.000095
ORF3a219L219LttGttA28P.10.000032
ORF3a219L219LTtgCtg67AY.290.000095
ORF3a219L219LttGttA17AY.290.000016
ORF3a219L219VTtgGtg77B.1.220.009223
ORF3a219L219LTtgCtg57B.1.617.20.000019
ORF3a219L219LttGttA27B.1.617.20.000008
ORF3a219L219LTtgCtg66AY.1030.000037
ORF3a219L219LttGttA66AY.1140.001387
ORF3a219L219LttGttA56AY.30.00005
ORF3a219L219LTtgCtg16AY.30.00001
ORF3a219L219StTgtCg46AY.430.000018
ORF3a219L219StTGtCT26AY.430.000009
ORF3a219L219LttGttA56B.1.10.000091
ORF3a219L219LTtgCtg16B.1.10.000018
ORF3a219L219VTtgGtg66B.1.1.70.000005
ORF3a219L219LttGttA36B.1.20.000026
ORF3a219L219LTtgCtg36B.1.20.000026
ORF3a219L219FttGttT66B.1.4290.000141
ORF3a219L219FttGttT66P.10.000095
ORF3a219L219KTTgAAg35All0.000001
ORF3a219L219KTTGAAA25All0
ORF3a219L219FttGttT55AY.140.00044
ORF3a219L219StTgtCg55AY.20.001781
ORF3a219L219LTtgCtg55AY.260.000142
ORF3a219L219FttGttT55AY.450.000608
ORF3a219L219FttGttT55AY.46.40.000823
ORF3a219L219FttGttT55AY.50.000103
ORF3a219L219FttGttT55AY.610.000524
ORF3a219L219VTtgGtg55B.1.1.1920.011547
ORF3a219L219delTTG---55B.1.1770.000066
ORF3a219L219LttGttA55B.1.4950.045455
ORF3a219L219FttGttT44AY.1000.000184
ORF3a219L219VTtgGtg44AY.40.000006
ORF3a219L219WtTgtGg44AY.420.000161
ORF3a219L219delTTG---44AY.430.000018
ORF3a219L219VTtgGtg44B.1.1.2180.030769
ORF3a219L219VTtgGtg44B.1.1.4620.034483
ORF3a219L219FttGttT44B.1.177.870.002911
ORF3a219L219FttGttT44B.1.36.290.002069
ORF3a219L219delTTG---44B.1.5250.000453
ORF3a219L219FttGttT44B.1.6370.000292
ORF3a219L219RTTGCGA33All0.000001
ORF3a219L219FttGttT33AY.1020.00008
ORF3a219L219VTtgGtg33AY.1030.000019
ORF3a219L219WtTgtGg33AY.1030.000019
ORF3a219L219LTtgCtg33AY.130.000483
ORF3a219L219LTtgCtg33AY.430.000013
ORF3a219L219StTgtCg33AY.46.60.000217
ORF3a219L219VTtgGtg33AY.60.000123
ORF3a219L219FttGttT33AY.75.10.000541
ORF3a219L219StTgtCg33AY.98.10.000145
ORF3a219L219VTtgGtg33B.1.1.1340.034091
ORF3a219L219FttGttT33B.1.1.4190.022222
ORF3a219L219KTTgAAg33B.1.1770.00004
ORF3a219L219StTgtCg33B.1.360.000438
ORF3a219L219FttGttT33B.1.4740.005703
ORF3a219L219StTgtCg33B.1.5260.000071
ORF3a219L219StTgtCg33B.1.617.20.000011
ORF3a219L219StTgtCg33P.10.000047
ORF3a219L219LTtgCtg220.111111
ORF3a219L219RTTGCGA220.111111
ORF3a219L219KTTGAAA220.111111
ORF3a219L219PTTGCCA220.111111
ORF3a219L219QTTGCAA220.111111
ORF3a219L219TTTGACA220.111111
ORF3a219L219TTTGACA22All0
ORF3a219L219QTTGCAA22All0
ORF3a219L219PTTGCCA22All0
ORF3a219L219LttGttA22AY.1000.000092
ORF3a219L219StTgtCg22AY.1000.000092
ORF3a219L219FttGttT22AY.1160.000574
ORF3a219L219LttGttA22AY.1200.000074
ORF3a219L219FttGttT22AY.1210.000271
ORF3a219L219LTtgCtg22AY.200.000078
ORF3a219L219FttGttT22AY.230.000139
ORF3a219L219FttGttC22AY.30.00002
ORF3a219L219StTgtCg22AY.30.00002
ORF3a219L219VTtgGtg22AY.390.000049
ORF3a219L219LTtgCtg22AY.7.20.001119
ORF3a219L219FttGttT22AY.980.000158
ORF3a219L219StTgtCg22B.10.000018
ORF3a219L219FttGttT22B.1.1.2030.033898
ORF3a219L219FttGttT22B.1.1.250.001137
ORF3a219L219FttGttT22B.1.1.500.001358
ORF3a219L219LTtgCtg22B.1.160.170.003401
ORF3a219L219VTtgGtg22B.1.1770.000026
ORF3a219L219LTtgCtg12B.1.1770.000013
ORF3a219L219LttGttA12B.1.1770.000013
ORF3a219L219LTtgCtg22B.1.177.210.000153
ORF3a219L219VTtgGtg22B.1.177.600.000437
ORF3a219L219StTgtCg22B.1.20.000018
ORF3a219L219StTgtCg22B.1.214.10.04
ORF3a219L219LttGttA22B.1.2580.000133
ORF3a219L219VTtgGtg22B.1.3430.041667
ORF3a219L219VTtgGtg22B.1.3510.000059
ORF3a219L219LTtgCtg22B.1.4090.001563
ORF3a219L219FttGttT22B.1.4250.005988
ORF3a219L219LTtgCtg12B.1.5260.000024
ORF3a219L219LttGttA12B.1.5260.000024
ORF3a219L219LTtgCtg22B.1.6210.000177
ORF3a219L219LTtgCtg22C.370.000232
ORF3a219L219LTtgCtg22N.40.008511
ORF3a219L219LttGttA12Q.10.000126
ORF3a219L219LTtgCtg12Q.10.000126
ORF3a219L219FttGttT22Q.20.001227
ORF3a219L219FttGttT22Q.80.00033
ORF3a219L219MTtgAtg11All0
ORF3a219L219XtTgtAg11All0
ORF3a219L219ITtGAtA11All0
ORF3a219L219FttGttT11AY.10.000396
ORF3a219L219LttGttA11AY.10.000396
ORF3a219L219FttGttT11AY.100.00053
ORF3a219L219StTgtCg11AY.1030.000006
ORF3a219L219LTtgCtg11AY.1100.000113
ORF3a219L219FttGttT11AY.1110.000183
ORF3a219L219LTtgCtg11AY.1110.000183
ORF3a219L219FttGttT11AY.1180.000063
ORF3a219L219LTtgCtg11AY.1190.000035
ORF3a219L219delTTG---11AY.1200.000037
ORF3a219L219FttGttT11AY.16.10.00047
ORF3a219L219FttGttT11AY.200.000039
ORF3a219L219LTtgCtg11AY.230.00007
ORF3a219L219FttGttT11AY.240.000431
ORF3a219L219StTgtCg11AY.250.000006
ORF3a219L219ITtGAtA11AY.30.00001
ORF3a219L219XtTgtAg11AY.30.00001
ORF3a219L219LTtgCtg11AY.300.000396
ORF3a219L219FttGttT11AY.300.000396
ORF3a219L219LTtgCtg11AY.340.000097
ORF3a219L219LttGttA11AY.370.000316
ORF3a219L219FttGttT11AY.420.00004
ORF3a219L219StTgtCg11AY.440.000006
ORF3a219L219LTtgCtg11AY.46.20.000635
ORF3a219L219FttGttT11AY.46.20.000635
ORF3a219L219LTtgCtg11AY.470.000031
ORF3a219L219StTGtCT11AY.5.40.000277
ORF3a219L219FttGttT11AY.590.00053
ORF3a219L219StTGtCT11AY.670.000464
ORF3a219L219FttGttT11AY.670.000464
ORF3a219L219delTTG---11AY.680.000274
ORF3a219L219LttGttA11AY.7.10.000113
ORF3a219L219FttGttT11AY.710.000475
ORF3a219L219StTgtCg11AY.750.000056
ORF3a219L219LTtgCtg11AY.75.10.00018
ORF3a219L219FttGttT11AY.780.001541
ORF3a219L219FttGttT11AY.870.000833
ORF3a219L219LTtgCtg11AY.9.10.000084
ORF3a219L219StTgtCg11AY.920.000287
ORF3a219L219FttGttT11AY.98.10.000048
ORF3a219L219LTtgCtg11AY.99.20.000092
ORF3a219L219FttGttT11AY.99.20.000092
ORF3a219L219FttGttT11AZ.50.003509
ORF3a219L219StTgtCg11B0.000128
ORF3a219L219delTTG---11B.10.000009
ORF3a219L219StTgtCg11B.1.10.000018
ORF3a219L219FttGttT11B.1.1.100.001115
ORF3a219L219FttGttT11B.1.1.1340.011364
ORF3a219L219WtTgtGg11B.1.1.1360.021277
ORF3a219L219FttGttT11B.1.1.160.055556
ORF3a219L219FttGttT11B.1.1.1760.000439
ORF3a219L219VTtgGtg11B.1.1.2000.007463
ORF3a219L219FttGttT11B.1.1.2140.000055
ORF3a219L219FttGttT11B.1.1.2160.00089
ORF3a219L219FttGttT11B.1.1.2220.000204
ORF3a219L219VTtgGtg11B.1.1.2580.003257
ORF3a219L219FttGttT11B.1.1.280.000311
ORF3a219L219delTTG---11B.1.1.3110.000358
ORF3a219L219FttGttC11B.1.1.3170.000412
ORF3a219L219LTtgCtg11B.1.1.3170.000412
ORF3a219L219VTtgGtg11B.1.1.330.000421
ORF3a219L219StTgtCg11B.1.1.330.000421
ORF3a219L219FttGttT11B.1.1.3440.010753
ORF3a219L219StTgtCg11B.1.1.3540.004386
ORF3a219L219VTtgGtg11B.1.1.3630.005988
ORF3a219L219VTtgGtg11B.1.1.370.000193
ORF3a219L219LTtgCtg11B.1.1.390.00051
ORF3a219L219VTtgGtg11B.1.1.3980.003226
ORF3a219L219LTtgCtg11B.1.1.4280.009434
ORF3a219L219VTtgGtg11B.1.1.4370.010417
ORF3a219L219VTtgGtg11B.1.1.4640.001473
ORF3a219L219VTtgGtg11B.1.1.560.017857
ORF3a219L219delTTG---11B.1.1.70.000001
ORF3a219L219LTtgCtg11B.1.1600.000031
ORF3a219L219FttGttT11B.1.177.40.000211
ORF3a219L219delTTG---11B.1.177.730.000566
ORF3a219L219delTTG---11B.1.20.000009
ORF3a219L219FttGttT11B.1.2210.000071
ORF3a219L219VTtgGtg11B.1.2580.000067
ORF3a219L219LTtgCtg11B.1.258.170.000104
ORF3a219L219LTtgCtg11B.1.3510.00003
ORF3a219L219FttGttT11B.1.351.20.000303
ORF3a219L219LTtgCtg11B.1.360.000146
ORF3a219L219StTgtCg11B.1.36.180.00042
ORF3a219L219VTtgGtg11B.1.3890.001002
ORF3a219L219LTtgCtg11B.1.3960.000706
ORF3a219L219LTtgCtg11B.1.4290.000024
ORF3a219L219FttGttT11B.1.4330.003195
ORF3a219L219StTgtCg11B.1.4590.004082
ORF3a219L219FttGttT11B.1.466.20.000391
ORF3a219L219VTtgGtg11B.1.4970.000315
ORF3a219L219RTTGCGA11B.1.4970.000315
ORF3a219L219VTtgGtg11B.1.5260.000024
ORF3a219L219FttGttT11B.1.5610.000397
ORF3a219L219delTTG---11B.1.5770.000687
ORF3a219L219StTgtCg11B.1.5820.000491
ORF3a219L219LttGttA11B.1.5960.000087
ORF3a219L219LttGttA11B.1.6090.000479
ORF3a219L219delTTG---11B.1.617.20.000004
ORF3a219L219FttGttT11B.1.6210.000089
ORF3a219L219StTgtCg11B.1.6210.000089
ORF3a219L219StTgtCg11B.1.621.10.000506
ORF3a219L219FttGttT11B.1.6280.000352
ORF3a219L219WtTgtGg11B.60.00091
ORF3a219L219StTgtCg11C.360.000911
ORF3a219L219FttGttT11C.40.01
ORF3a219L219StTgtCg11D.20.000075
ORF3a219L219MTtgAtg11D.20.000075
ORF3a219L219LTtgCtg11P.1.120.000484
ORF3a219L219StTgtCg11P.1.150.000232
ORF3a219L219LTtgCtg11P.1.70.000319
ORF3a219L219LTtgCtg11P.1.80.004785
ORF3a219L219VTtgGtg11P.20.000187
ORF3a219L219delTTG---11Q.10.000126
ORF3a219L219delTTG---11R.10.00009

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.