CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 273

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
ORF1ab/nsp3273I273VI1091VnonsynAtaGta12885128810.999693536-3538
ORF1ab/nsp3273I273VI1091VnonsynAtAGtG1288520.0001552193536-3538
ORF1ab/nsp3273I273VI1091VnonsynAtAGtT1288520.0001552193536-3538
ORF1ab/nsp3273I273MI1091MnonsynatAatG79679613536-3538
ORF1ab/nsp3273I273TI1091TnonsynaTaaCa25725713536-3538
ORF1ab/nsp3273I273delI1091deldelATA---18418413536-3538
ORF1ab/nsp3273I273II1091IsynatAatT33230.696973536-3538
ORF1ab/nsp3273I273II1091IsynatAatC33100.303033536-3538
ORF1ab/nsp3273I273KI1091KnonsynaTaaAa24230.9583333536-3538
ORF1ab/nsp3273I273KI1091KnonsynaTAaAG2410.04166673536-3538
ORF1ab/nsp3273I273LI1091LnonsynAtaCta19100.5263163536-3538
ORF1ab/nsp3273I273LI1091LnonsynAtaTta1990.4736843536-3538
ORF1ab/nsp3273I273EI1091EnonsynATaGAa111113536-3538
ORF1ab/nsp3273I273AI1091AnonsynATAGCT650.8333333536-3538
ORF1ab/nsp3273I273GI1091GnonsynATaGGa640.6666673536-3538
ORF1ab/nsp3273I273GI1091GnonsynATAGGT620.3333333536-3538
ORF1ab/nsp3273I273AI1091AnonsynATaGCa610.1666673536-3538
ORF1ab/nsp3273I273del1I1091del1delatAat-430.753536-3538
ORF1ab/nsp3273I273del1I1091del1delATA-NN410.253536-3538
ORF1ab/nsp3273I273RI1091RnonsynaTaaGa2213536-3538
ORF1ab/nsp3273I273XI1091XnonsynATaTGa210.53536-3538
ORF1ab/nsp3273I273XI1091XnonsynATaTAa210.53536-3538
ORF1ab/nsp3273I273SI1091SnonsynATaTCa1113536-3538
ORF1ab/nsp3273I273del2I1091del2delATa--a1113536-3538

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp3273I273VAtaGta1288112885All0.002464
ORF1ab/nsp3273I273VAtAGtT212885All0
ORF1ab/nsp3273I273VAtAGtG212885All0
ORF1ab/nsp3273I273VAtaGta1068810690AY.99.20.984978
ORF1ab/nsp3273I273VAtAGtG210690AY.99.20.000184
ORF1ab/nsp3273I273MatAatG796796All0.000152
ORF1ab/nsp3273I273VAtaGta616616AY.99.10.956522
ORF1ab/nsp3273I273VAtaGta509509AY.990.534103
ORF1ab/nsp3273I273MatAatG428428B.1.36.360.257676
ORF1ab/nsp3273I273VAtaGta405405AY.40.00063
ORF1ab/nsp3273I273TaTaaCa257257All0.000049
ORF1ab/nsp3273I273VAtaGta248248AY.1030.00154
ORF1ab/nsp3273I273VAtaGta223224B.1.1.70.0002
ORF1ab/nsp3273I273VAtAGtT1224B.1.1.70.000001
ORF1ab/nsp3273I273delATA---184184All0.000035
ORF1ab/nsp3273I273MatAatG182182B.1.1.70.000163
ORF1ab/nsp3273I273MatAatG5353B.1.177.210.004053
ORF1ab/nsp3273I273TaTaaCa4848B.1.617.20.000181
ORF1ab/nsp3273I273TaTaaCa4646AY.390.001137
ORF1ab/nsp3273I273MatAatG3636AY.270.00233
ORF1ab/nsp3273I273IatAatT2333All0.000004
ORF1ab/nsp3273I273IatAatC1033All0.000002
ORF1ab/nsp3273I273VAtaGta3333P.10.00052
ORF1ab/nsp3273I273delATA---2727B.1.1.70.000024
ORF1ab/nsp3273I273KaTaaAa2324All0.000004
ORF1ab/nsp3273I273KaTAaAG124All0
ORF1ab/nsp3273I273delATA---2323P.1.150.005344
ORF1ab/nsp3273I273TaTaaCa2222AY.1030.000137
ORF1ab/nsp3273I273delATA---2222P.10.000347
ORF1ab/nsp3273I273LAtaCta1019All0.000002
ORF1ab/nsp3273I273LAtaTta919All0.000002
ORF1ab/nsp3273I273KaTaaAa1919P.10.000299
ORF1ab/nsp3273I273TaTaaCa1717AY.40.000026
ORF1ab/nsp3273I273VAtaGta1717B.1.617.20.000064
ORF1ab/nsp3273I273IatAatC816B.1.1.70.000007
ORF1ab/nsp3273I273IatAatT816B.1.1.70.000007
ORF1ab/nsp3273I273TaTaaCa1414B.1.1.70.000013
ORF1ab/nsp3273I273VAtaGta1313AY.430.000058
ORF1ab/nsp3273I273VAtaGta1313AY.5.30.004386
ORF1ab/nsp3273I273MatAatG1212AY.40.000019
ORF1ab/nsp3273I273TaTaaCa1212AY.9.20.000441
ORF1ab/nsp3273I273MatAatG1212B.1.20.000106
ORF1ab/nsp3273I273EATaGAa1111All0.000002
ORF1ab/nsp3273I273delATA---1111B.10.000101
ORF1ab/nsp3273I273EATaGAa1010P.10.000158
ORF1ab/nsp3273I273delATA---1010P.1.120.00484
ORF1ab/nsp3273I273TaTaaCa99AY.610.000943
ORF1ab/nsp3273I273IatAatT99B.1.5250.001018
ORF1ab/nsp3273I273TaTaaCa88AY.440.000049
ORF1ab/nsp3273I273VAtaGta88B.10.000073
ORF1ab/nsp3273I273MatAatG88B.1.258.170.000832
ORF1ab/nsp3273I273delATA---88B.1.6210.000708
ORF1ab/nsp3273I273TaTaaCa88K.30.049383
ORF1ab/nsp3273I273MatAatG77AY.1020.000186
ORF1ab/nsp3273I273VAtaGta77AY.1180.000439
ORF1ab/nsp3273I273VAtaGta77AY.46.60.000505
ORF1ab/nsp3273I273LAtaCta67B.1.1.70.000005
ORF1ab/nsp3273I273LAtaTta17B.1.1.70.000001
ORF1ab/nsp3273I273delATA---77B.1.20.000062
ORF1ab/nsp3273I273VAtaGta77B.1.20.000062
ORF1ab/nsp3273I273TaTaaCa77B.1.2580.000466
ORF1ab/nsp3273I273MatAatG77B.1.617.20.000026
ORF1ab/nsp3273I273VAtaGta77P.1.70.002235
ORF1ab/nsp3273I273GATaGGa460.222222
ORF1ab/nsp3273I273GATAGGT260.111111
ORF1ab/nsp3273I273VAtaGta66A.2.5.10.028846
ORF1ab/nsp3273I273AATAGCT56All0.000001
ORF1ab/nsp3273I273GATaGGa46All0.000001
ORF1ab/nsp3273I273GATAGGT26All0
ORF1ab/nsp3273I273AATaGCa16All0
ORF1ab/nsp3273I273TaTaaCa66AY.1020.000159
ORF1ab/nsp3273I273VAtaGta66AY.750.000336
ORF1ab/nsp3273I273MatAatG66B.1.10.000109
ORF1ab/nsp3273I273TaTaaCa55AY.50.000103
ORF1ab/nsp3273I273TaTaaCa55AY.75.10.000902
ORF1ab/nsp3273I273delATA---55B.1.10.000091
ORF1ab/nsp3273I273delATA---55C.370.00058
ORF1ab/nsp3273I273del1atAat-34All0.000001
ORF1ab/nsp3273I273del1ATA-NN14All0
ORF1ab/nsp3273I273delATA---44AY.430.000018
ORF1ab/nsp3273I273VAtaGta44AY.470.000124
ORF1ab/nsp3273I273VAtaGta44AY.50.000083
ORF1ab/nsp3273I273VAtaGta44AY.840.00175
ORF1ab/nsp3273I273VAtaGta44B.1.2580.000266
ORF1ab/nsp3273I273VAtaGta44B.1.351.20.00121
ORF1ab/nsp3273I273TaTaaCa44P.10.000063
ORF1ab/nsp3273I273delATA---33AY.1000.000138
ORF1ab/nsp3273I273TaTaaCa33AY.1000.000138
ORF1ab/nsp3273I273VAtaGta33AY.290.000047
ORF1ab/nsp3273I273MatAatG33AY.440.000018
ORF1ab/nsp3273I273TaTaaCa33AY.920.000862
ORF1ab/nsp3273I273MatAatG33B.10.000027
ORF1ab/nsp3273I273AATAGCT33B.1.1.70.000003
ORF1ab/nsp3273I273TaTaaCa33B.1.20.000026
ORF1ab/nsp3273I273MatAatG33B.1.360.000438
ORF1ab/nsp3273I273delATA---33B.1.617.20.000011
ORF1ab/nsp3273I273VAtaGta33P.1.10.000953
ORF1ab/nsp3273I273delATA---33P.1.140.000143
ORF1ab/nsp3273I273delATA---33P.1.70.000958
ORF1ab/nsp3273I273VAtaGta220.111111
ORF1ab/nsp3273I273AATAGCT220.111111
ORF1ab/nsp3273I273RaTaaGa220.111111
ORF1ab/nsp3273I273delATA---220.111111
ORF1ab/nsp3273I273RaTaaGa22All0
ORF1ab/nsp3273I273XATaTGa12All0
ORF1ab/nsp3273I273XATaTAa12All0
ORF1ab/nsp3273I273MatAatG22AY.1030.000012
ORF1ab/nsp3273I273LAtaCta22AY.1030.000012
ORF1ab/nsp3273I273MatAatG22AY.1140.000462
ORF1ab/nsp3273I273TaTaaCa22AY.1170.000169
ORF1ab/nsp3273I273TaTaaCa22AY.1180.000125
ORF1ab/nsp3273I273VAtaGta22AY.1190.000071
ORF1ab/nsp3273I273TaTaaCa22AY.200.000078
ORF1ab/nsp3273I273TaTaaCa22AY.30.00002
ORF1ab/nsp3273I273MatAatG22AY.390.000049
ORF1ab/nsp3273I273delATA---22AY.40.000003
ORF1ab/nsp3273I273TaTaaCa22AY.4.20.000043
ORF1ab/nsp3273I273LAtaTta22AY.4.2.10.000298
ORF1ab/nsp3273I273MatAatG22AY.420.00008
ORF1ab/nsp3273I273delATA---22AY.420.00008
ORF1ab/nsp3273I273VAtaGta22AY.420.00008
ORF1ab/nsp3273I273VAtaGta22AY.460.000208
ORF1ab/nsp3273I273VAtaGta22AY.60.000082
ORF1ab/nsp3273I273TaTaaCa22AY.670.000929
ORF1ab/nsp3273I273delATA---22AY.90.000135
ORF1ab/nsp3273I273VAtaGta22AY.9.20.000073
ORF1ab/nsp3273I273VAtAGtT12B.1.10.000018
ORF1ab/nsp3273I273VAtaGta12B.1.10.000018
ORF1ab/nsp3273I273delATA---22B.1.1.1740.006757
ORF1ab/nsp3273I273MatAatG22B.1.1.250.001137
ORF1ab/nsp3273I273TaTaaCa22B.1.1.2840.000215
ORF1ab/nsp3273I273TaTaaCa22B.1.1.700.000682
ORF1ab/nsp3273I273MatAatG22B.1.1770.000026
ORF1ab/nsp3273I273TaTaaCa22B.1.177.320.002699
ORF1ab/nsp3273I273MatAatG22B.1.177.750.002081
ORF1ab/nsp3273I273IatAatT22B.1.20.000018
ORF1ab/nsp3273I273delATA---22B.1.2430.000139
ORF1ab/nsp3273I273delATA---22B.1.4290.000047
ORF1ab/nsp3273I273TaTaaCa22B.1.6270.00404
ORF1ab/nsp3273I273del1atAat-22B.1.6270.00404
ORF1ab/nsp3273I273delATA---22N.60.014184
ORF1ab/nsp3273I273MatAatG22P.20.000373
ORF1ab/nsp3273I273MatAatG11A0.000387
ORF1ab/nsp3273I273KaTaaAa11A.2.40.003367
ORF1ab/nsp3273I273del2ATa--a11All0
ORF1ab/nsp3273I273SATaTCa11All0
ORF1ab/nsp3273I273VAtaGta11AY.1000.000046
ORF1ab/nsp3273I273IatAatC11AY.1020.000027
ORF1ab/nsp3273I273delATA---11AY.1020.000027
ORF1ab/nsp3273I273VAtaGta11AY.1050.000643
ORF1ab/nsp3273I273VAtaGta11AY.1090.00074
ORF1ab/nsp3273I273delATA---11AY.110.001339
ORF1ab/nsp3273I273MatAatG11AY.1110.000183
ORF1ab/nsp3273I273VAtaGta11AY.1110.000183
ORF1ab/nsp3273I273TaTaaCa11AY.1130.000142
ORF1ab/nsp3273I273VAtaGta11AY.1170.000085
ORF1ab/nsp3273I273MatAatG11AY.1180.000063
ORF1ab/nsp3273I273delATA---11AY.1180.000063
ORF1ab/nsp3273I273VAtaGta11AY.1200.000037
ORF1ab/nsp3273I273LAtaTta11AY.1200.000037
ORF1ab/nsp3273I273delATA---11AY.1210.000135
ORF1ab/nsp3273I273VAtaGta11AY.230.00007
ORF1ab/nsp3273I273delATA---11AY.230.00007
ORF1ab/nsp3273I273delATA---11AY.240.000431
ORF1ab/nsp3273I273delATA---11AY.250.000006
ORF1ab/nsp3273I273MatAatG11AY.250.000006
ORF1ab/nsp3273I273VAtaGta11AY.250.000006
ORF1ab/nsp3273I273TaTaaCa11AY.260.000028
ORF1ab/nsp3273I273delATA---11AY.260.000028
ORF1ab/nsp3273I273TaTaaCa11AY.290.000016
ORF1ab/nsp3273I273VAtaGta11AY.30.00001
ORF1ab/nsp3273I273VAtaGta11AY.360.000148
ORF1ab/nsp3273I273LAtaTta11AY.40.000002
ORF1ab/nsp3273I273LAtaTta11AY.4.20.000022
ORF1ab/nsp3273I273VAtaGta11AY.410.000294
ORF1ab/nsp3273I273TaTaaCa11AY.420.00004
ORF1ab/nsp3273I273LAtaTta11AY.430.000004
ORF1ab/nsp3273I273MatAatG11AY.430.000004
ORF1ab/nsp3273I273IatAatT11AY.430.000004
ORF1ab/nsp3273I273VAtaGta11AY.440.000006
ORF1ab/nsp3273I273delATA---11AY.450.000122
ORF1ab/nsp3273I273VAtaGta11AY.450.000122
ORF1ab/nsp3273I273KaTaaAa11AY.460.000104
ORF1ab/nsp3273I273TaTaaCa11AY.460.000104
ORF1ab/nsp3273I273VAtaGta11AY.46.20.000635
ORF1ab/nsp3273I273TaTaaCa11AY.46.60.000072
ORF1ab/nsp3273I273delATA---11AY.590.00053
ORF1ab/nsp3273I273VAtaGta11AY.590.00053
ORF1ab/nsp3273I273delATA---11AY.670.000464
ORF1ab/nsp3273I273delATA---11AY.680.000274
ORF1ab/nsp3273I273VAtaGta11AY.740.000116
ORF1ab/nsp3273I273TaTaaCa11AY.750.000056
ORF1ab/nsp3273I273delATA---11AY.840.000437
ORF1ab/nsp3273I273TaTaaCa11AY.9.10.000084
ORF1ab/nsp3273I273VAtaGta11AY.920.000287
ORF1ab/nsp3273I273MatAatG11AY.98.10.000048
ORF1ab/nsp3273I273TaTaaCa11AY.98.10.000048
ORF1ab/nsp3273I273IatAatT11AY.990.001049
ORF1ab/nsp3273I273del1atAat-11AY.990.001049
ORF1ab/nsp3273I273VAtaGta11AZ.20.000821
ORF1ab/nsp3273I273delATA---11AZ.20.000821
ORF1ab/nsp3273I273TaTaaCa11B.10.000009
ORF1ab/nsp3273I273MatAatG11B.1.1.1700.001247
ORF1ab/nsp3273I273LAtaCta11B.1.1.2220.000204
ORF1ab/nsp3273I273VAtaGta11B.1.1.280.000311
ORF1ab/nsp3273I273MatAatG11B.1.1.2910.000742
ORF1ab/nsp3273I273delATA---11B.1.1.3060.000438
ORF1ab/nsp3273I273IatAatC11B.1.1.3060.000438
ORF1ab/nsp3273I273delATA---11B.1.1.330.000421
ORF1ab/nsp3273I273delATA---11B.1.1.3480.000796
ORF1ab/nsp3273I273MatAatG11B.1.1.390.00051
ORF1ab/nsp3273I273TaTaaCa11B.1.1.4620.008621
ORF1ab/nsp3273I273del1ATA-NN11B.1.1.70.000001
ORF1ab/nsp3273I273delATA---11B.1.1570.002985
ORF1ab/nsp3273I273MatAatG11B.1.1600.000031
ORF1ab/nsp3273I273MatAatG11B.1.160.160.000929
ORF1ab/nsp3273I273delATA---11B.1.1770.000013
ORF1ab/nsp3273I273TaTaaCa11B.1.1770.000013
ORF1ab/nsp3273I273XATaTGa11B.1.177.730.000566
ORF1ab/nsp3273I273EATaGAa11B.1.20.000009
ORF1ab/nsp3273I273del2ATa--a11B.1.20.000009
ORF1ab/nsp3273I273LAtaTta11B.1.20.000009
ORF1ab/nsp3273I273SATaTCa11B.1.20.000009
ORF1ab/nsp3273I273AATaGCa11B.1.20.000009
ORF1ab/nsp3273I273KaTaaAa11B.1.20.000009
ORF1ab/nsp3273I273XATaTAa11B.1.20.000009
ORF1ab/nsp3273I273delATA---11B.1.2180.005155
ORF1ab/nsp3273I273VAtaGta11B.1.2210.000071
ORF1ab/nsp3273I273delATA---11B.1.2230.002778
ORF1ab/nsp3273I273VAtaGta11B.1.3110.000275
ORF1ab/nsp3273I273VAtaGta11B.1.3460.001311
ORF1ab/nsp3273I273delATA---11B.1.3510.00003
ORF1ab/nsp3273I273delATA---11B.1.360.000146
ORF1ab/nsp3273I273IatAatT11B.1.360.000146
ORF1ab/nsp3273I273MatAatG11B.1.36.10.00114
ORF1ab/nsp3273I273MatAatG11B.1.36.290.000517
ORF1ab/nsp3273I273MatAatG11B.1.36.90.003215
ORF1ab/nsp3273I273MatAatG11B.1.3990.001934
ORF1ab/nsp3273I273VAtaGta11B.1.4590.004082
ORF1ab/nsp3273I273TaTaaCa11B.1.4700.001404
ORF1ab/nsp3273I273delATA---11B.1.5170.000427
ORF1ab/nsp3273I273TaTaaCa11B.1.5750.000303
ORF1ab/nsp3273I273MatAatG11B.1.5820.000491
ORF1ab/nsp3273I273LAtaTta11B.1.5960.000087
ORF1ab/nsp3273I273TaTaaCa11B.1.5960.000087
ORF1ab/nsp3273I273delATA---11B.1.5960.000087
ORF1ab/nsp3273I273MatAatG11B.1.6060.006024
ORF1ab/nsp3273I273delATA---11B.1.617.10.000129
ORF1ab/nsp3273I273TaTaaCa11B.1.6210.000089
ORF1ab/nsp3273I273delATA---11B.1.621.10.000506
ORF1ab/nsp3273I273MatAatG11B.1.621.10.000506
ORF1ab/nsp3273I273VAtaGta11B.1.6230.000536
ORF1ab/nsp3273I273delATA---11B.1.6270.00202
ORF1ab/nsp3273I273IatAatT11B.1.6360.006711
ORF1ab/nsp3273I273VAtaGta11C.360.000911
ORF1ab/nsp3273I273LAtaCta11C.370.000116
ORF1ab/nsp3273I273delATA---11D.20.000075
ORF1ab/nsp3273I273MatAatG11P.10.000016
ORF1ab/nsp3273I273delATA---11P.1.10.000318
ORF1ab/nsp3273I273delATA---11P.1.100.000269
ORF1ab/nsp3273I273VAtaGta11P.1.120.000484
ORF1ab/nsp3273I273delATA---11P.1.130.000898
ORF1ab/nsp3273I273MatAatG11P.1.140.000048
ORF1ab/nsp3273I273VAtaGta11P.1.140.000048
ORF1ab/nsp3273I273VAtaGta11P.1.160.000374
ORF1ab/nsp3273I273KaTAaAG11P.1.170.000162
ORF1ab/nsp3273I273KaTaaAa11P.20.000187
ORF1ab/nsp3273I273VAtaGta11P.20.000187
ORF1ab/nsp3273I273delATA---11P.20.000187
ORF1ab/nsp3273I273delATA---11Q.80.000165
ORF1ab/nsp3273I273TaTaaCa11Q.80.000165

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.