CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 154

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/nsp3154E154KE972KnonsynGaaAaa54554513179-3181
ORF1ab/nsp3154E154AE972AnonsyngAagCa21121113179-3181
ORF1ab/nsp3154E154GE972GnonsyngAagGa15515513179-3181
ORF1ab/nsp3154E154EE972EsyngaAgaG12812813179-3181
ORF1ab/nsp3154E154DE972DnonsyngaAgaC105600.5714293179-3181
ORF1ab/nsp3154E154DE972DnonsyngaAgaT105450.4285713179-3181
ORF1ab/nsp3154E154VE972VnonsyngAagTa47380.8085113179-3181
ORF1ab/nsp3154E154VE972VnonsyngAAgTT4790.1914893179-3181
ORF1ab/nsp3154E154XE972XnonsynGaaTaa333313179-3181
ORF1ab/nsp3154E154delE972deldelGAA---323213179-3181
ORF1ab/nsp3154E154QE972QnonsynGaaCaa161613179-3181
ORF1ab/nsp3154E154del1E972del1delgaAga-210.53179-3181
ORF1ab/nsp3154E154del1E972del1delGaa-aa210.53179-3181

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/nsp3154E154KGaaAaa545545All0.000104
ORF1ab/nsp3154E154AgAagCa211211All0.00004
ORF1ab/nsp3154E154GgAagGa155155All0.00003
ORF1ab/nsp3154E154EgaAgaG128128All0.000024
ORF1ab/nsp3154E154KGaaAaa120120B.1.1.700.040928
ORF1ab/nsp3154E154DgaAgaC60105All0.000011
ORF1ab/nsp3154E154DgaAgaT45105All0.000009
ORF1ab/nsp3154E154AgAagCa9696AD.20.02102
ORF1ab/nsp3154E154KGaaAaa6262A.161
ORF1ab/nsp3154E154KGaaAaa5454B.1.1.70.000048
ORF1ab/nsp3154E154KGaaAaa5050AY.39.10.001981
ORF1ab/nsp3154E154VgAagTa3847All0.000007
ORF1ab/nsp3154E154VgAAgTT947All0.000002
ORF1ab/nsp3154E154GgAagGa4646B.1.4600.821429
ORF1ab/nsp3154E154AgAagCa3636B.1.1.70.000032
ORF1ab/nsp3154E154XGaaTaa3333All0.000006
ORF1ab/nsp3154E154delGAA---3232All0.000006
ORF1ab/nsp3154E154DgaAgaC2329B.1.1.70.000021
ORF1ab/nsp3154E154DgaAgaT629B.1.1.70.000005
ORF1ab/nsp3154E154KGaaAaa2727AY.40.000042
ORF1ab/nsp3154E154GgAagGa2424B.1.1.70.000021
ORF1ab/nsp3154E154KGaaAaa2424P.10.000378
ORF1ab/nsp3154E154DgaAgaT1521AY.1030.000093
ORF1ab/nsp3154E154DgaAgaC621AY.1030.000037
ORF1ab/nsp3154E154EgaAgaG2121B.1.1.2140.001165
ORF1ab/nsp3154E154GgAagGa2020AY.50.000413
ORF1ab/nsp3154E154KGaaAaa1818B.1.360.002626
ORF1ab/nsp3154E154EgaAgaG1717B.1.5950.004436
ORF1ab/nsp3154E154QGaaCaa1616All0.000003
ORF1ab/nsp3154E154EgaAgaG1616B.1.1.70.000014
ORF1ab/nsp3154E154KGaaAaa1616B.1.20.000141
ORF1ab/nsp3154E154EgaAgaG1515AY.40.000023
ORF1ab/nsp3154E154XGaaTaa1414D.20.001051
ORF1ab/nsp3154E154KGaaAaa1313AY.1030.000081
ORF1ab/nsp3154E154EgaAgaG1212AY.5.40.00332
ORF1ab/nsp3154E154KGaaAaa1212B.1.617.20.000045
ORF1ab/nsp3154E154KGaaAaa1111AY.260.000311
ORF1ab/nsp3154E154KGaaAaa1111B.1.1.5190.000437
ORF1ab/nsp3154E154GgAagGa1010AY.40.000016
ORF1ab/nsp3154E154AgAagCa1010AY.420.000402
ORF1ab/nsp3154E154KGaaAaa1010AY.430.000044
ORF1ab/nsp3154E154VgAagTa910B.1.1.70.000008
ORF1ab/nsp3154E154VgAAgTT110B.1.1.70.000001
ORF1ab/nsp3154E154AgAagCa1010B.1.617.20.000038
ORF1ab/nsp3154E154KGaaAaa99B.10.000082
ORF1ab/nsp3154E154GgAagGa88P.10.000126
ORF1ab/nsp3154E154AgAagCa77AY.300.00277
ORF1ab/nsp3154E154AgAagCa77AY.440.000043
ORF1ab/nsp3154E154VgAagTa47B.10.000037
ORF1ab/nsp3154E154VgAAgTT37B.10.000027
ORF1ab/nsp3154E154KGaaAaa66AY.1020.000159
ORF1ab/nsp3154E154VgAagTa66AY.250.000036
ORF1ab/nsp3154E154GgAagGa66AY.290.000095
ORF1ab/nsp3154E154KGaaAaa66AY.420.000241
ORF1ab/nsp3154E154KGaaAaa66B.1.10.000109
ORF1ab/nsp3154E154KGaaAaa66B.1.1.1210.014563
ORF1ab/nsp3154E154DgaAgaC66B.1.5260.000141
ORF1ab/nsp3154E154delGAA---66B.1.617.20.000023
ORF1ab/nsp3154E154KGaaAaa55AE.80.002445
ORF1ab/nsp3154E154EgaAgaG55AY.1030.000031
ORF1ab/nsp3154E154KGaaAaa55AY.30.00005
ORF1ab/nsp3154E154DgaAgaC55AY.460.00052
ORF1ab/nsp3154E154DgaAgaT55AY.730.003327
ORF1ab/nsp3154E154DgaAgaT55B.10.000046
ORF1ab/nsp3154E154AgAagCa55B.1.1.3150.042373
ORF1ab/nsp3154E154QGaaCaa55B.1.617.20.000019
ORF1ab/nsp3154E154AgAagCa44AY.1030.000025
ORF1ab/nsp3154E154KGaaAaa44AY.250.000024
ORF1ab/nsp3154E154DgaAgaT34AY.430.000013
ORF1ab/nsp3154E154DgaAgaC14AY.430.000004
ORF1ab/nsp3154E154KGaaAaa44AY.870.003331
ORF1ab/nsp3154E154EgaAgaG44B.10.000037
ORF1ab/nsp3154E154AgAagCa44B.10.000037
ORF1ab/nsp3154E154KGaaAaa44B.1.1.1630.030534
ORF1ab/nsp3154E154GgAagGa44B.1.1.5190.000159
ORF1ab/nsp3154E154delGAA---44B.1.1.70.000004
ORF1ab/nsp3154E154EgaAgaG44B.1.617.20.000015
ORF1ab/nsp3154E154QGaaCaa44D.20.0003
ORF1ab/nsp3154E154VgAagTa44P.10.000063
ORF1ab/nsp3154E154KGaaAaa33AY.1000.000138
ORF1ab/nsp3154E154KGaaAaa33AY.200.000117
ORF1ab/nsp3154E154DgaAgaC33AY.30.00003
ORF1ab/nsp3154E154AgAagCa33AY.390.000074
ORF1ab/nsp3154E154AgAagCa33AY.40.000005
ORF1ab/nsp3154E154GgAagGa33AY.430.000013
ORF1ab/nsp3154E154KGaaAaa33AY.440.000018
ORF1ab/nsp3154E154GgAagGa33AY.470.000093
ORF1ab/nsp3154E154VgAAgTT23B0.000256
ORF1ab/nsp3154E154VgAagTa13B0.000128
ORF1ab/nsp3154E154delGAA---33B.10.000027
ORF1ab/nsp3154E154delGAA---33B.1.1.330.001263
ORF1ab/nsp3154E154KGaaAaa33B.1.1.3850.013393
ORF1ab/nsp3154E154VgAagTa23B.1.20.000018
ORF1ab/nsp3154E154VgAAgTT13B.1.20.000009
ORF1ab/nsp3154E154KGaaAaa33B.1.3110.000824
ORF1ab/nsp3154E154AgAagCa33B.1.3400.012876
ORF1ab/nsp3154E154KGaaAaa33B.1.3510.000089
ORF1ab/nsp3154E154KGaaAaa33B.1.4270.000151
ORF1ab/nsp3154E154DgaAgaT23B.1.617.20.000008
ORF1ab/nsp3154E154VgAagTa23B.1.617.20.000008
ORF1ab/nsp3154E154DgaAgaC13B.1.617.20.000004
ORF1ab/nsp3154E154VgAAgTT13B.1.617.20.000004
ORF1ab/nsp3154E154GgAagGa33P.20.00056
ORF1ab/nsp3154E154del1gaAga-12All0
ORF1ab/nsp3154E154del1Gaa-aa12All0
ORF1ab/nsp3154E154delGAA---22AY.1020.000053
ORF1ab/nsp3154E154GgAagGa22AY.1130.000285
ORF1ab/nsp3154E154AgAagCa22AY.250.000012
ORF1ab/nsp3154E154EgaAgaG22AY.290.000032
ORF1ab/nsp3154E154DgaAgaC22AY.40.000003
ORF1ab/nsp3154E154AgAagCa22AY.430.000009
ORF1ab/nsp3154E154QGaaCaa22AY.440.000012
ORF1ab/nsp3154E154KGaaAaa22AY.450.000243
ORF1ab/nsp3154E154EgaAgaG22AY.750.000112
ORF1ab/nsp3154E154VgAAgTT12AY.750.000056
ORF1ab/nsp3154E154VgAagTa12AY.750.000056
ORF1ab/nsp3154E154EgaAgaG22AY.98.10.000097
ORF1ab/nsp3154E154EgaAgaG22B.1.10.000036
ORF1ab/nsp3154E154XGaaTaa22B.1.10.000036
ORF1ab/nsp3154E154AgAagCa22B.1.10.000036
ORF1ab/nsp3154E154GgAagGa22B.1.10.000036
ORF1ab/nsp3154E154EgaAgaG22B.1.1.2220.000408
ORF1ab/nsp3154E154EgaAgaG22B.1.1.2940.002532
ORF1ab/nsp3154E154KGaaAaa22B.1.1.3170.000823
ORF1ab/nsp3154E154delGAA---22B.1.1.3480.001592
ORF1ab/nsp3154E154EgaAgaG22B.1.1.3480.001592
ORF1ab/nsp3154E154XGaaTaa22B.1.1.70.000002
ORF1ab/nsp3154E154EgaAgaG22B.1.1600.000062
ORF1ab/nsp3154E154GgAagGa22B.1.177.40.000422
ORF1ab/nsp3154E154DgaAgaT22B.1.2210.000142
ORF1ab/nsp3154E154XGaaTaa22B.1.2430.000139
ORF1ab/nsp3154E154GgAagGa22B.1.258.170.000208
ORF1ab/nsp3154E154KGaaAaa22B.1.2650.002541
ORF1ab/nsp3154E154EgaAgaG22B.1.36.310.003503
ORF1ab/nsp3154E154VgAagTa22B.1.3980.005952
ORF1ab/nsp3154E154DgaAgaC22B.1.5690.028986
ORF1ab/nsp3154E154EgaAgaG22B.1.617.10.000258
ORF1ab/nsp3154E154GgAagGa22B.1.617.20.000008
ORF1ab/nsp3154E154GgAagGa22B.1.6370.000146
ORF1ab/nsp3154E154KGaaAaa22D.20.00015
ORF1ab/nsp3154E154delGAA---22N.60.014184
ORF1ab/nsp3154E154KGaaAaa11A0.000387
ORF1ab/nsp3154E154XGaaTaa11A0.000387
ORF1ab/nsp3154E154XGaaTaa11A.20.000662
ORF1ab/nsp3154E154GgAagGa11A.2.20.001689
ORF1ab/nsp3154E154delGAA---11AY.1030.000006
ORF1ab/nsp3154E154DgaAgaC11AY.1140.000231
ORF1ab/nsp3154E154KGaaAaa11AY.1140.000231
ORF1ab/nsp3154E154KGaaAaa11AY.116.10.000311
ORF1ab/nsp3154E154KGaaAaa11AY.1190.000035
ORF1ab/nsp3154E154AgAagCa11AY.1190.000035
ORF1ab/nsp3154E154GgAagGa11AY.1200.000037
ORF1ab/nsp3154E154delGAA---11AY.1200.000037
ORF1ab/nsp3154E154KGaaAaa11AY.120.10.000321
ORF1ab/nsp3154E154AgAagCa11AY.120.2.10.000498
ORF1ab/nsp3154E154KGaaAaa11AY.160.00038
ORF1ab/nsp3154E154EgaAgaG11AY.200.000039
ORF1ab/nsp3154E154DgaAgaT11AY.230.00007
ORF1ab/nsp3154E154VgAagTa11AY.260.000028
ORF1ab/nsp3154E154EgaAgaG11AY.260.000028
ORF1ab/nsp3154E154AgAagCa11AY.290.000016
ORF1ab/nsp3154E154AgAagCa11AY.29.10.000221
ORF1ab/nsp3154E154GgAagGa11AY.30.00001
ORF1ab/nsp3154E154GgAagGa11AY.330.000067
ORF1ab/nsp3154E154AgAagCa11AY.360.000148
ORF1ab/nsp3154E154EgaAgaG11AY.390.000025
ORF1ab/nsp3154E154KGaaAaa11AY.390.000025
ORF1ab/nsp3154E154delGAA---11AY.40.000002
ORF1ab/nsp3154E154VgAagTa11AY.40.000002
ORF1ab/nsp3154E154GgAagGa11AY.4.20.000022
ORF1ab/nsp3154E154EgaAgaG11AY.4.30.000842
ORF1ab/nsp3154E154QGaaCaa11AY.430.000004
ORF1ab/nsp3154E154EgaAgaG11AY.430.000004
ORF1ab/nsp3154E154EgaAgaG11AY.440.000006
ORF1ab/nsp3154E154XGaaTaa11AY.440.000006
ORF1ab/nsp3154E154VgAagTa11AY.46.40.000165
ORF1ab/nsp3154E154DgaAgaC11AY.46.50.000198
ORF1ab/nsp3154E154KGaaAaa11AY.46.60.000072
ORF1ab/nsp3154E154XGaaTaa11AY.50.000021
ORF1ab/nsp3154E154DgaAgaT11AY.540.000095
ORF1ab/nsp3154E154KGaaAaa11AY.60.000041
ORF1ab/nsp3154E154delGAA---11AY.610.000105
ORF1ab/nsp3154E154GgAagGa11AY.650.000533
ORF1ab/nsp3154E154KGaaAaa11AY.7.20.000559
ORF1ab/nsp3154E154EgaAgaG11AY.710.000475
ORF1ab/nsp3154E154KGaaAaa11AY.750.000056
ORF1ab/nsp3154E154DgaAgaT11AY.750.000056
ORF1ab/nsp3154E154delGAA---11AY.90.000068
ORF1ab/nsp3154E154KGaaAaa11AY.9.20.000037
ORF1ab/nsp3154E154AgAagCa11AY.9.20.000037
ORF1ab/nsp3154E154GgAagGa11AY.9.20.000037
ORF1ab/nsp3154E154DgaAgaT11B0.000128
ORF1ab/nsp3154E154GgAagGa11B.10.000009
ORF1ab/nsp3154E154XGaaTaa11B.10.000009
ORF1ab/nsp3154E154QGaaCaa11B.10.000009
ORF1ab/nsp3154E154QGaaCaa11B.1.10.000018
ORF1ab/nsp3154E154delGAA---11B.1.10.000018
ORF1ab/nsp3154E154DgaAgaC11B.1.10.000018
ORF1ab/nsp3154E154XGaaTaa11B.1.1.1480.008772
ORF1ab/nsp3154E154KGaaAaa11B.1.1.1610.003534
ORF1ab/nsp3154E154KGaaAaa11B.1.1.2140.000055
ORF1ab/nsp3154E154AgAagCa11B.1.1.2220.000204
ORF1ab/nsp3154E154DgaAgaT11B.1.1.2550.00303
ORF1ab/nsp3154E154XGaaTaa11B.1.1.2750.011236
ORF1ab/nsp3154E154delGAA---11B.1.1.2840.000107
ORF1ab/nsp3154E154EgaAgaG11B.1.1.3060.000438
ORF1ab/nsp3154E154KGaaAaa11B.1.1.3110.000358
ORF1ab/nsp3154E154XGaaTaa11B.1.1.3110.000358
ORF1ab/nsp3154E154GgAagGa11B.1.1.3320.03125
ORF1ab/nsp3154E154XGaaTaa11B.1.1.3720.000689
ORF1ab/nsp3154E154XGaaTaa11B.1.1.390.00051
ORF1ab/nsp3154E154VgAagTa11B.1.1.390.00051
ORF1ab/nsp3154E154AgAagCa11B.1.1.5170.006803
ORF1ab/nsp3154E154EgaAgaG11B.1.1.5190.00004
ORF1ab/nsp3154E154DgaAgaC11B.1.1.630.000386
ORF1ab/nsp3154E154del1gaAga-11B.1.1.70.000001
ORF1ab/nsp3154E154KGaaAaa11B.1.110.30.000718
ORF1ab/nsp3154E154KGaaAaa11B.1.1390.000733
ORF1ab/nsp3154E154AgAagCa11B.1.1400.018868
ORF1ab/nsp3154E154KGaaAaa11B.1.1600.000031
ORF1ab/nsp3154E154XGaaTaa11B.1.160.160.000929
ORF1ab/nsp3154E154DgaAgaC11B.1.1770.000013
ORF1ab/nsp3154E154GgAagGa11B.1.1770.000013
ORF1ab/nsp3154E154KGaaAaa11B.1.177.180.00116
ORF1ab/nsp3154E154XGaaTaa11B.1.177.420.000894
ORF1ab/nsp3154E154KGaaAaa11B.1.177.690.001484
ORF1ab/nsp3154E154KGaaAaa11B.1.177.810.000189
ORF1ab/nsp3154E154AgAagCa11B.1.20.000009
ORF1ab/nsp3154E154DgaAgaT11B.1.20.000009
ORF1ab/nsp3154E154XGaaTaa11B.1.20.000009
ORF1ab/nsp3154E154GgAagGa11B.1.20.000009
ORF1ab/nsp3154E154EgaAgaG11B.1.20.000009
ORF1ab/nsp3154E154KGaaAaa11B.1.2340.000132
ORF1ab/nsp3154E154AgAagCa11B.1.2430.00007
ORF1ab/nsp3154E154GgAagGa11B.1.258.110.000396
ORF1ab/nsp3154E154DgaAgaC11B.1.2980.002114
ORF1ab/nsp3154E154delGAA---11B.1.3510.00003
ORF1ab/nsp3154E154GgAagGa11B.1.3510.00003
ORF1ab/nsp3154E154QGaaCaa11B.1.3510.00003
ORF1ab/nsp3154E154DgaAgaC11B.1.36.290.000517
ORF1ab/nsp3154E154VgAagTa11B.1.3670.000792
ORF1ab/nsp3154E154KGaaAaa11B.1.3710.001122
ORF1ab/nsp3154E154KGaaAaa11B.1.4090.000781
ORF1ab/nsp3154E154del1Gaa-aa11B.1.4270.00005
ORF1ab/nsp3154E154delGAA---11B.1.4290.000024
ORF1ab/nsp3154E154EgaAgaG11B.1.4290.000024
ORF1ab/nsp3154E154DgaAgaC11B.1.4290.000024
ORF1ab/nsp3154E154AgAagCa11B.1.466.20.000391
ORF1ab/nsp3154E154GgAagGa11B.1.5260.000024
ORF1ab/nsp3154E154GgAagGa11B.1.5410.004425
ORF1ab/nsp3154E154delGAA---11B.1.5610.000397
ORF1ab/nsp3154E154AgAagCa11B.1.5750.000303
ORF1ab/nsp3154E154EgaAgaG11B.1.5960.000087
ORF1ab/nsp3154E154KGaaAaa11B.1.6090.000479
ORF1ab/nsp3154E154DgaAgaC11B.1.617.10.000129
ORF1ab/nsp3154E154VgAagTa11B.1.6210.000089
ORF1ab/nsp3154E154KGaaAaa11B.1.6360.006711
ORF1ab/nsp3154E154AgAagCa11B.60.00091
ORF1ab/nsp3154E154KGaaAaa11C.360.000911
ORF1ab/nsp3154E154DgaAgaT11C.36.30.000567
ORF1ab/nsp3154E154AgAagCa11D.20.000075
ORF1ab/nsp3154E154GgAagGa11D.20.000075
ORF1ab/nsp3154E154EgaAgaG11P.10.000016
ORF1ab/nsp3154E154VgAagTa11P.1.140.000048
ORF1ab/nsp3154E154EgaAgaG11P.1.150.000232
ORF1ab/nsp3154E154AgAagCa11P.1.150.000232
ORF1ab/nsp3154E154KGaaAaa11P.1.150.000232
ORF1ab/nsp3154E154QGaaCaa11P.1.150.000232
ORF1ab/nsp3154E154DgaAgaC11P.1.160.000374
ORF1ab/nsp3154E154AgAagCa11P.1.70.000319
ORF1ab/nsp3154E154KGaaAaa11P.20.000187
ORF1ab/nsp3154E154KGaaAaa11Q.10.000126
ORF1ab/nsp3154E154KGaaAaa11Q.30.000145
ORF1ab/nsp3154E154KGaaAaa11Q.40.000455
ORF1ab/nsp3154E154DgaAgaC11Q.80.000165
ORF1ab/nsp3154E154KGaaAaa11Q.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.