CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1789

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/nsp31789E1789KE2607KnonsynGaaAaa7119711918084-8086
ORF1ab/nsp31789E1789AE2607AnonsyngAagCa37337318084-8086
ORF1ab/nsp31789E1789EE2607EsyngaAgaG18818818084-8086
ORF1ab/nsp31789E1789delE2607deldelGAA---818118084-8086
ORF1ab/nsp31789E1789GE2607GnonsyngAagGa787818084-8086
ORF1ab/nsp31789E1789DE2607DnonsyngaAgaC62510.8225818084-8086
ORF1ab/nsp31789E1789DE2607DnonsyngaAgaT62110.1774198084-8086
ORF1ab/nsp31789E1789del1E2607del1delgAag-a21200.9523818084-8086
ORF1ab/nsp31789E1789del1E2607del1delGaa-aa2110.0476198084-8086
ORF1ab/nsp31789E1789XE2607XnonsynGaaTaa121218084-8086
ORF1ab/nsp31789E1789VE2607VnonsyngAagTa9918084-8086
ORF1ab/nsp31789E1789del2E2607del2delgAAg--7718084-8086
ORF1ab/nsp31789E1789QE2607QnonsynGaaCaa2218084-8086
ORF1ab/nsp31789E1789HE2607HnonsynGaACaT2218084-8086

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/nsp31789E1789KGaaAaa71197119All0.001362
ORF1ab/nsp31789E1789KGaaAaa41334133B.1.1.70.0037
ORF1ab/nsp31789E1789KGaaAaa15511551B.1.619.10.994869
ORF1ab/nsp31789E1789KGaaAaa11221122B.1.6190.977352
ORF1ab/nsp31789E1789AgAagCa373373All0.000071
ORF1ab/nsp31789E1789AgAagCa334334B.1.1.70.000299
ORF1ab/nsp31789E1789EgaAgaG188188All0.000036
ORF1ab/nsp31789E1789delGAA---8181All0.000015
ORF1ab/nsp31789E1789GgAagGa7878All0.000015
ORF1ab/nsp31789E1789DgaAgaC5162All0.00001
ORF1ab/nsp31789E1789DgaAgaT1162All0.000002
ORF1ab/nsp31789E1789EgaAgaG5252AY.1190.001836
ORF1ab/nsp31789E1789KGaaAaa4747B.1.617.20.000177
ORF1ab/nsp31789E1789delGAA---3737B.1.1.70.000033
ORF1ab/nsp31789E1789KGaaAaa3636B.10.00033
ORF1ab/nsp31789E1789EgaAgaG3232B.1.617.20.00012
ORF1ab/nsp31789E1789KGaaAaa3030AY.40.000047
ORF1ab/nsp31789E1789EgaAgaG3030B.1.1.3010.035377
ORF1ab/nsp31789E1789EgaAgaG2424AY.250.000144
ORF1ab/nsp31789E1789AgAagCa2323Q.10.002906
ORF1ab/nsp31789E1789del1gAag-a2021All0.000004
ORF1ab/nsp31789E1789del1Gaa-aa121All0
ORF1ab/nsp31789E1789DgaAgaC1717B.1.351.20.005144
ORF1ab/nsp31789E1789GgAagGa1515B.1.1.70.000013
ORF1ab/nsp31789E1789KGaaAaa1515B.1.4270.000757
ORF1ab/nsp31789E1789KGaaAaa1414B.1.10.000254
ORF1ab/nsp31789E1789KGaaAaa1313B.1.20.000114
ORF1ab/nsp31789E1789XGaaTaa1212All0.000002
ORF1ab/nsp31789E1789DgaAgaC1212B.1.617.20.000045
ORF1ab/nsp31789E1789KGaaAaa1111Q.10.00139
ORF1ab/nsp31789E1789VgAagTa99All0.000002
ORF1ab/nsp31789E1789EgaAgaG99AY.430.00004
ORF1ab/nsp31789E1789KGaaAaa99B.1.1.2940.011392
ORF1ab/nsp31789E1789KGaaAaa88AY.440.000049
ORF1ab/nsp31789E1789EgaAgaG88B.1.1.70.000007
ORF1ab/nsp31789E1789KGaaAaa88D.20.0006
ORF1ab/nsp31789E1789del2gAAg--77All0.000001
ORF1ab/nsp31789E1789GgAagGa77AY.40.000011
ORF1ab/nsp31789E1789GgAagGa77B.1.1770.000092
ORF1ab/nsp31789E1789delGAA---66AY.40.000009
ORF1ab/nsp31789E1789EgaAgaG66AY.450.00073
ORF1ab/nsp31789E1789KGaaAaa66AY.980.000474
ORF1ab/nsp31789E1789KGaaAaa55B0.000639
ORF1ab/nsp31789E1789DgaAgaC55B.1.10.000091
ORF1ab/nsp31789E1789KGaaAaa55B.1.1.3710.052083
ORF1ab/nsp31789E1789KGaaAaa55B.1.1770.000066
ORF1ab/nsp31789E1789GgAagGa55B.1.20.000044
ORF1ab/nsp31789E1789KGaaAaa44AY.1020.000106
ORF1ab/nsp31789E1789KGaaAaa44AY.250.000024
ORF1ab/nsp31789E1789DgaAgaT34AY.40.000005
ORF1ab/nsp31789E1789DgaAgaC14AY.40.000002
ORF1ab/nsp31789E1789DgaAgaC34AY.430.000013
ORF1ab/nsp31789E1789DgaAgaT14AY.430.000004
ORF1ab/nsp31789E1789GgAagGa44B.10.000037
ORF1ab/nsp31789E1789delGAA---44B.10.000037
ORF1ab/nsp31789E1789delGAA---44B.1.10.000073
ORF1ab/nsp31789E1789DgaAgaC44B.1.1.4860.006309
ORF1ab/nsp31789E1789GgAagGa44B.1.3980.011905
ORF1ab/nsp31789E1789KGaaAaa44B.1.4290.000094
ORF1ab/nsp31789E1789GgAagGa44B.1.4290.000094
ORF1ab/nsp31789E1789EgaAgaG44B.1.5260.000094
ORF1ab/nsp31789E1789AgAagCa44B.1.617.20.000015
ORF1ab/nsp31789E1789DgaAgaC33AY.1020.00008
ORF1ab/nsp31789E1789del1gAag-a33AY.440.000018
ORF1ab/nsp31789E1789EgaAgaG33AY.440.000018
ORF1ab/nsp31789E1789KGaaAaa33AY.99.20.000276
ORF1ab/nsp31789E1789GgAagGa33B.1.10.000054
ORF1ab/nsp31789E1789del1gAag-a33B.1.1.70.000003
ORF1ab/nsp31789E1789GgAagGa33B.1.1.750.031915
ORF1ab/nsp31789E1789KGaaAaa33B.1.1600.000094
ORF1ab/nsp31789E1789KGaaAaa33B.1.2430.000209
ORF1ab/nsp31789E1789GgAagGa33B.1.3620.004622
ORF1ab/nsp31789E1789KGaaAaa33B.1.438.10.000322
ORF1ab/nsp31789E1789EgaAgaG33B.1.564.10.004732
ORF1ab/nsp31789E1789del1gAag-a220.111111
ORF1ab/nsp31789E1789QGaaCaa22All0
ORF1ab/nsp31789E1789HGaACaT22All0
ORF1ab/nsp31789E1789EgaAgaG22AY.1030.000012
ORF1ab/nsp31789E1789DgaAgaC22AY.4.20.000043
ORF1ab/nsp31789E1789delGAA---22AY.4.50.000215
ORF1ab/nsp31789E1789delGAA---22AY.430.000009
ORF1ab/nsp31789E1789AgAagCa22AY.430.000009
ORF1ab/nsp31789E1789KGaaAaa22AY.430.000009
ORF1ab/nsp31789E1789XGaaTaa22AY.430.000009
ORF1ab/nsp31789E1789AgAagCa22AY.440.000012
ORF1ab/nsp31789E1789KGaaAaa22AY.50.000041
ORF1ab/nsp31789E1789KGaaAaa22AY.60.000082
ORF1ab/nsp31789E1789AgAagCa22B.1.1.1890.003026
ORF1ab/nsp31789E1789KGaaAaa22B.1.1.2770.001517
ORF1ab/nsp31789E1789KGaaAaa22B.1.1460.008475
ORF1ab/nsp31789E1789delGAA---22B.1.1770.000026
ORF1ab/nsp31789E1789delGAA---22B.1.177.160.001329
ORF1ab/nsp31789E1789EgaAgaG22B.1.20.000018
ORF1ab/nsp31789E1789KGaaAaa22B.1.2320.001075
ORF1ab/nsp31789E1789KGaaAaa22B.1.3110.000549
ORF1ab/nsp31789E1789KGaaAaa22B.1.3210.068966
ORF1ab/nsp31789E1789DgaAgaT22B.1.36.190.018519
ORF1ab/nsp31789E1789KGaaAaa22B.1.5260.000047
ORF1ab/nsp31789E1789KGaaAaa22B.1.5820.000981
ORF1ab/nsp31789E1789KGaaAaa22B.1.5970.009259
ORF1ab/nsp31789E1789delGAA---22B.1.617.20.000008
ORF1ab/nsp31789E1789VgAagTa22B.1.617.20.000008
ORF1ab/nsp31789E1789KGaaAaa22P.1.140.000096
ORF1ab/nsp31789E1789GgAagGa22Q.30.00029
ORF1ab/nsp31789E1789GgAagGa110.055556
ORF1ab/nsp31789E1789del1gAag-a11A0.000387
ORF1ab/nsp31789E1789XGaaTaa11A0.000387
ORF1ab/nsp31789E1789KGaaAaa11A.20.000662
ORF1ab/nsp31789E1789AgAagCa11A.23.10.000704
ORF1ab/nsp31789E1789KGaaAaa11A.50.001923
ORF1ab/nsp31789E1789KGaaAaa11AY.1030.000006
ORF1ab/nsp31789E1789GgAagGa11AY.1030.000006
ORF1ab/nsp31789E1789delGAA---11AY.1110.000183
ORF1ab/nsp31789E1789GgAagGa11AY.1170.000085
ORF1ab/nsp31789E1789KGaaAaa11AY.1180.000063
ORF1ab/nsp31789E1789del1gAag-a11AY.1190.000035
ORF1ab/nsp31789E1789GgAagGa11AY.1200.000037
ORF1ab/nsp31789E1789del1gAag-a11AY.1210.000135
ORF1ab/nsp31789E1789KGaaAaa11AY.190.00114
ORF1ab/nsp31789E1789delGAA---11AY.190.00114
ORF1ab/nsp31789E1789EgaAgaG11AY.200.000039
ORF1ab/nsp31789E1789KGaaAaa11AY.200.000039
ORF1ab/nsp31789E1789KGaaAaa11AY.230.00007
ORF1ab/nsp31789E1789KGaaAaa11AY.23.10.000417
ORF1ab/nsp31789E1789AgAagCa11AY.250.000006
ORF1ab/nsp31789E1789GgAagGa11AY.250.000006
ORF1ab/nsp31789E1789del1gAag-a11AY.260.000028
ORF1ab/nsp31789E1789AgAagCa11AY.30.00001
ORF1ab/nsp31789E1789AgAagCa11AY.3.10.000085
ORF1ab/nsp31789E1789QGaaCaa11AY.300.000396
ORF1ab/nsp31789E1789del2gAAg--11AY.320.000532
ORF1ab/nsp31789E1789delGAA---11AY.330.000067
ORF1ab/nsp31789E1789KGaaAaa11AY.390.000025
ORF1ab/nsp31789E1789EgaAgaG11AY.390.000025
ORF1ab/nsp31789E1789KGaaAaa11AY.39.10.00004
ORF1ab/nsp31789E1789VgAagTa11AY.39.10.00004
ORF1ab/nsp31789E1789EgaAgaG11AY.40.000002
ORF1ab/nsp31789E1789del1gAag-a11AY.40.000002
ORF1ab/nsp31789E1789AgAagCa11AY.40.000002
ORF1ab/nsp31789E1789KGaaAaa11AY.4.20.000022
ORF1ab/nsp31789E1789KGaaAaa11AY.4.2.10.000149
ORF1ab/nsp31789E1789VgAagTa11AY.4.2.10.000149
ORF1ab/nsp31789E1789del2gAAg--11AY.4.50.000107
ORF1ab/nsp31789E1789KGaaAaa11AY.420.00004
ORF1ab/nsp31789E1789VgAagTa11AY.430.000004
ORF1ab/nsp31789E1789del2gAAg--11AY.430.000004
ORF1ab/nsp31789E1789GgAagGa11AY.430.000004
ORF1ab/nsp31789E1789GgAagGa11AY.440.000006
ORF1ab/nsp31789E1789XGaaTaa11AY.440.000006
ORF1ab/nsp31789E1789KGaaAaa11AY.460.000104
ORF1ab/nsp31789E1789EgaAgaG11AY.460.000104
ORF1ab/nsp31789E1789delGAA---11AY.46.20.000635
ORF1ab/nsp31789E1789KGaaAaa11AY.46.40.000165
ORF1ab/nsp31789E1789DgaAgaC11AY.46.60.000072
ORF1ab/nsp31789E1789GgAagGa11AY.470.000031
ORF1ab/nsp31789E1789GgAagGa11AY.50.000021
ORF1ab/nsp31789E1789DgaAgaT11AY.60.000041
ORF1ab/nsp31789E1789GgAagGa11AY.60.000041
ORF1ab/nsp31789E1789KGaaAaa11AY.620.000436
ORF1ab/nsp31789E1789del1gAag-a11AY.670.000464
ORF1ab/nsp31789E1789KGaaAaa11AY.690.000187
ORF1ab/nsp31789E1789XGaaTaa11AY.710.000475
ORF1ab/nsp31789E1789KGaaAaa11AY.710.000475
ORF1ab/nsp31789E1789delGAA---11AY.720.001361
ORF1ab/nsp31789E1789KGaaAaa11AY.720.001361
ORF1ab/nsp31789E1789KGaaAaa11AY.750.000056
ORF1ab/nsp31789E1789del1Gaa-aa11AY.750.000056
ORF1ab/nsp31789E1789EgaAgaG11AY.75.10.00018
ORF1ab/nsp31789E1789EgaAgaG11AY.850.000427
ORF1ab/nsp31789E1789XGaaTaa11AY.9.20.000037
ORF1ab/nsp31789E1789XGaaTaa11B0.000128
ORF1ab/nsp31789E1789EgaAgaG11B.10.000009
ORF1ab/nsp31789E1789XGaaTaa11B.10.000009
ORF1ab/nsp31789E1789DgaAgaC11B.10.000009
ORF1ab/nsp31789E1789XGaaTaa11B.1.10.000018
ORF1ab/nsp31789E1789HGaACaT11B.1.10.000018
ORF1ab/nsp31789E1789VgAagTa11B.1.10.000018
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.10.000327
ORF1ab/nsp31789E1789GgAagGa11B.1.1.10.000327
ORF1ab/nsp31789E1789del2gAAg--11B.1.1.1610.003534
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.1720.018182
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.2260.005814
ORF1ab/nsp31789E1789delGAA---11B.1.1.2360.006897
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.2580.003257
ORF1ab/nsp31789E1789AgAagCa11B.1.1.2630.001558
ORF1ab/nsp31789E1789GgAagGa11B.1.1.280.000311
ORF1ab/nsp31789E1789EgaAgaG11B.1.1.280.000311
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.2910.000742
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.3030.002762
ORF1ab/nsp31789E1789delGAA---11B.1.1.3060.000438
ORF1ab/nsp31789E1789delGAA---11B.1.1.3150.008475
ORF1ab/nsp31789E1789EgaAgaG11B.1.1.3170.000412
ORF1ab/nsp31789E1789QGaaCaa11B.1.1.3690.000446
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.370.000193
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.3720.000689
ORF1ab/nsp31789E1789EgaAgaG11B.1.1.4340.000349
ORF1ab/nsp31789E1789delGAA---11B.1.1.460.004367
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.5190.00004
ORF1ab/nsp31789E1789XGaaTaa11B.1.1.70.000001
ORF1ab/nsp31789E1789VgAagTa11B.1.1.70.000001
ORF1ab/nsp31789E1789HGaACaT11B.1.1.70.000001
ORF1ab/nsp31789E1789del2gAAg--11B.1.1.70.000001
ORF1ab/nsp31789E1789DgaAgaT11B.1.1.70.000001
ORF1ab/nsp31789E1789KGaaAaa11B.1.1.700.000341
ORF1ab/nsp31789E1789delGAA---11B.1.1.700.000341
ORF1ab/nsp31789E1789delGAA---11B.1.1400.018868
ORF1ab/nsp31789E1789GgAagGa11B.1.1470.000756
ORF1ab/nsp31789E1789EgaAgaG11B.1.1770.000013
ORF1ab/nsp31789E1789del2gAAg--11B.1.1770.000013
ORF1ab/nsp31789E1789DgaAgaC11B.1.177.170.000821
ORF1ab/nsp31789E1789delGAA---11B.1.177.180.00116
ORF1ab/nsp31789E1789XGaaTaa11B.1.177.210.000076
ORF1ab/nsp31789E1789delGAA---11B.1.177.570.000281
ORF1ab/nsp31789E1789delGAA---11B.1.177.60.000977
ORF1ab/nsp31789E1789delGAA---11B.1.177.620.001192
ORF1ab/nsp31789E1789KGaaAaa11B.1.177.70.000165
ORF1ab/nsp31789E1789KGaaAaa11B.1.177.730.000566
ORF1ab/nsp31789E1789GgAagGa11B.1.177.860.000183
ORF1ab/nsp31789E1789del1gAag-a11B.1.20.000009
ORF1ab/nsp31789E1789GgAagGa11B.1.2340.000132
ORF1ab/nsp31789E1789KGaaAaa11B.1.2340.000132
ORF1ab/nsp31789E1789KGaaAaa11B.1.2400.000216
ORF1ab/nsp31789E1789delGAA---11B.1.2420.018868
ORF1ab/nsp31789E1789DgaAgaC11B.1.2430.00007
ORF1ab/nsp31789E1789KGaaAaa11B.1.2580.000067
ORF1ab/nsp31789E1789DgaAgaT11B.1.2600.003344
ORF1ab/nsp31789E1789KGaaAaa11B.1.2650.001271
ORF1ab/nsp31789E1789KGaaAaa11B.1.3050.002151
ORF1ab/nsp31789E1789KGaaAaa11B.1.3380.008621
ORF1ab/nsp31789E1789delGAA---11B.1.36.180.00042
ORF1ab/nsp31789E1789KGaaAaa11B.1.36.390.002217
ORF1ab/nsp31789E1789GgAagGa11B.1.3660.004878
ORF1ab/nsp31789E1789KGaaAaa11B.1.3710.001122
ORF1ab/nsp31789E1789GgAagGa11B.1.416.10.001563
ORF1ab/nsp31789E1789del1gAag-a11B.1.4240.008065
ORF1ab/nsp31789E1789XGaaTaa11B.1.4290.000024
ORF1ab/nsp31789E1789KGaaAaa11B.1.5090.000866
ORF1ab/nsp31789E1789VgAagTa11B.1.5260.000024
ORF1ab/nsp31789E1789KGaaAaa11B.1.5670.003333
ORF1ab/nsp31789E1789del2gAAg--11B.1.5950.000261
ORF1ab/nsp31789E1789KGaaAaa11B.1.5960.000087
ORF1ab/nsp31789E1789KGaaAaa11B.1.6120.002653
ORF1ab/nsp31789E1789GgAagGa11B.1.617.20.000004
ORF1ab/nsp31789E1789KGaaAaa11B.1.6210.000089
ORF1ab/nsp31789E1789del1gAag-a11B.1.6210.000089
ORF1ab/nsp31789E1789GgAagGa11B.1.6210.000089
ORF1ab/nsp31789E1789GgAagGa11B.1.6370.000073
ORF1ab/nsp31789E1789delGAA---11B.1.6380.052632
ORF1ab/nsp31789E1789KGaaAaa11B.290.003509
ORF1ab/nsp31789E1789KGaaAaa11B.310.003731
ORF1ab/nsp31789E1789DgaAgaT11C.350.000774
ORF1ab/nsp31789E1789del1gAag-a11D.20.000075
ORF1ab/nsp31789E1789KGaaAaa11L.40.05
ORF1ab/nsp31789E1789EgaAgaG11N.30.005814
ORF1ab/nsp31789E1789KGaaAaa11P.10.000016
ORF1ab/nsp31789E1789del1gAag-a11P.10.000016
ORF1ab/nsp31789E1789VgAagTa11P.10.000016
ORF1ab/nsp31789E1789DgaAgaT11P.10.000016
ORF1ab/nsp31789E1789KGaaAaa11P.1.10.000318
ORF1ab/nsp31789E1789EgaAgaG11P.1.140.000048
ORF1ab/nsp31789E1789delGAA---11Q.10.000126
ORF1ab/nsp31789E1789KGaaAaa11Q.20.000613
ORF1ab/nsp31789E1789del1gAag-a11Q.30.000145
ORF1ab/nsp31789E1789KGaaAaa11Q.40.000455
ORF1ab/nsp31789E1789KGaaAaa11Q.50.016949
ORF1ab/nsp31789E1789GgAagGa11Q.80.000165
ORF1ab/nsp31789E1789delGAA---11U.30.003861

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.