CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 954

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/nsp3954G954GG1772GsynggCggT12296120420.9793435579-5581
ORF1ab/nsp3954G954GG1772GsynggCggA122962200.0178925579-5581
ORF1ab/nsp3954G954GG1772GsynggCggG12296340.002765135579-5581
ORF1ab/nsp3954G954SG1772SnonsynGgcAgc48460.9583335579-5581
ORF1ab/nsp3954G954SG1772SnonsynGGcTCc4810.02083335579-5581
ORF1ab/nsp3954G954SG1772SnonsynGgCAgT4810.02083335579-5581
ORF1ab/nsp3954G954DG1772DnonsyngGcgAc323215579-5581
ORF1ab/nsp3954G954delG1772deldelGGC---121215579-5581
ORF1ab/nsp3954G954VG1772VnonsyngGcgTc8815579-5581
ORF1ab/nsp3954G954CG1772CnonsynGgcTgc6615579-5581
ORF1ab/nsp3954G954AG1772AnonsyngGcgCc4415579-5581
ORF1ab/nsp3954G954RG1772RnonsynGgCAgA310.3333335579-5581
ORF1ab/nsp3954G954RG1772RnonsynGgCCgT310.3333335579-5581
ORF1ab/nsp3954G954RG1772RnonsynGgcCgc310.3333335579-5581
ORF1ab/nsp3954G954del1G1772del1delggCgg-1115579-5581
ORF1ab/nsp3954G954HG1772HnonsynGGcCAc1115579-5581
ORF1ab/nsp3954G954NG1772NnonsynGGcAAc1115579-5581
ORF1ab/nsp3954G954KG1772KnonsynGGCAAA1115579-5581
ORF1ab/nsp3954G954EG1772EnonsyngGCgAA1115579-5581

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/nsp3954G954GggCggT1204212296All0.002303
ORF1ab/nsp3954G954GggCggA22012296All0.000042
ORF1ab/nsp3954G954GggCggG3412296All0.000007
ORF1ab/nsp3954G954GggCggT1058010580B.1.6370.773109
ORF1ab/nsp3954G954GggCggT479485B.10.004387
ORF1ab/nsp3954G954GggCggA5485B.10.000046
ORF1ab/nsp3954G954GggCggG1485B.10.000009
ORF1ab/nsp3954G954GggCggT104182AY.40.000162
ORF1ab/nsp3954G954GggCggA50182AY.40.000078
ORF1ab/nsp3954G954GggCggG28182AY.40.000044
ORF1ab/nsp3954G954GggCggT95153B.1.1.70.000085
ORF1ab/nsp3954G954GggCggA57153B.1.1.70.000051
ORF1ab/nsp3954G954GggCggG1153B.1.1.70.000001
ORF1ab/nsp3954G954GggCggT139139AY.3.10.011851
ORF1ab/nsp3954G954GggCggT103103B.1.1.700.03513
ORF1ab/nsp3954G954GggCggA4586B.1.1770.000593
ORF1ab/nsp3954G954GggCggT4186B.1.1770.00054
ORF1ab/nsp3954G954GggCggT5155B.1.617.20.000192
ORF1ab/nsp3954G954GggCggA455B.1.617.20.000015
ORF1ab/nsp3954G954SGgcAgc4648All0.000009
ORF1ab/nsp3954G954SGgCAgT148All0
ORF1ab/nsp3954G954SGGcTCc148All0
ORF1ab/nsp3954G954GggCggT4242B.1.4270.002121
ORF1ab/nsp3954G954GggCggT3434B.1.10.000617
ORF1ab/nsp3954G954DgGcgAc3232All0.000006
ORF1ab/nsp3954G954GggCggT3031B.1.2210.002131
ORF1ab/nsp3954G954GggCggG131B.1.2210.000071
ORF1ab/nsp3954G954GggCggT2727AY.290.000426
ORF1ab/nsp3954G954GggCggT1820AY.1030.000112
ORF1ab/nsp3954G954GggCggA220AY.1030.000012
ORF1ab/nsp3954G954GggCggA1718AY.260.000481
ORF1ab/nsp3954G954GggCggT118AY.260.000028
ORF1ab/nsp3954G954GggCggT1717AY.1020.000451
ORF1ab/nsp3954G954GggCggT1616B.1.5260.000376
ORF1ab/nsp3954G954GggCggA1214AY.1180.000752
ORF1ab/nsp3954G954GggCggT214AY.1180.000125
ORF1ab/nsp3954G954GggCggT1414B.1.177.70.002308
ORF1ab/nsp3954G954SGgcAgc1313AY.430.000058
ORF1ab/nsp3954G954delGGC---1212All0.000002
ORF1ab/nsp3954G954GggCggT1112AY.440.000067
ORF1ab/nsp3954G954GggCggA112AY.440.000006
ORF1ab/nsp3954G954GggCggT1212B0.001534
ORF1ab/nsp3954G954GggCggT1212B.1.177.60.011719
ORF1ab/nsp3954G954GggCggT1111AY.1190.000388
ORF1ab/nsp3954G954GggCggA1010AY.790.012107
ORF1ab/nsp3954G954GggCggT99AY.250.000054
ORF1ab/nsp3954G954GggCggT99AY.430.00004
ORF1ab/nsp3954G954GggCggT99B.1.20.000079
ORF1ab/nsp3954G954VgGcgTc88All0.000002
ORF1ab/nsp3954G954GggCggT78AY.390.000173
ORF1ab/nsp3954G954GggCggA18AY.390.000025
ORF1ab/nsp3954G954GggCggT88B.1.2580.000532
ORF1ab/nsp3954G954DgGcgAc88B.1.6250.018824
ORF1ab/nsp3954G954GggCggT77AY.30.00007
ORF1ab/nsp3954G954GggCggT77B.1.1.3680.021605
ORF1ab/nsp3954G954SGgcAgc77B.1.177.460.006428
ORF1ab/nsp3954G954GggCggT77B.1.6360.04698
ORF1ab/nsp3954G954GggCggT77P.10.00011
ORF1ab/nsp3954G954CGgcTgc66All0.000001
ORF1ab/nsp3954G954GggCggT66B.1.177.730.003398
ORF1ab/nsp3954G954GggCggT55AY.1000.00023
ORF1ab/nsp3954G954GggCggT45AY.470.000124
ORF1ab/nsp3954G954GggCggA15AY.470.000031
ORF1ab/nsp3954G954GggCggT55B.1.1.5070.043478
ORF1ab/nsp3954G954AgGcgCc44All0.000001
ORF1ab/nsp3954G954SGgcAgc44AY.40.000006
ORF1ab/nsp3954G954DgGcgAc44B.10.000037
ORF1ab/nsp3954G954GggCggT44B.1.1.280.001245
ORF1ab/nsp3954G954GggCggT34B.1.1600.000094
ORF1ab/nsp3954G954GggCggG14B.1.1600.000031
ORF1ab/nsp3954G954GggCggT44B.1.2650.005083
ORF1ab/nsp3954G954GggCggT44B.1.6180.016129
ORF1ab/nsp3954G954GggCggG230.111111
ORF1ab/nsp3954G954GggCggA130.055556
ORF1ab/nsp3954G954RGgCAgA13All0
ORF1ab/nsp3954G954RGgcCgc13All0
ORF1ab/nsp3954G954RGgCCgT13All0
ORF1ab/nsp3954G954GggCggT33AY.100.00159
ORF1ab/nsp3954G954DgGcgAc33AY.1030.000019
ORF1ab/nsp3954G954GggCggT33AY.320.001597
ORF1ab/nsp3954G954GggCggT33AY.330.0002
ORF1ab/nsp3954G954DgGcgAc33AY.430.000013
ORF1ab/nsp3954G954GggCggT33AY.530.000863
ORF1ab/nsp3954G954GggCggT33AY.690.00056
ORF1ab/nsp3954G954GggCggT33B.1.1.5190.000119
ORF1ab/nsp3954G954GggCggT33B.1.3110.000824
ORF1ab/nsp3954G954GggCggT33B.1.36.290.001552
ORF1ab/nsp3954G954GggCggT23B.1.4290.000047
ORF1ab/nsp3954G954GggCggA13B.1.4290.000024
ORF1ab/nsp3954G954GggCggT33B.1.5960.000261
ORF1ab/nsp3954G954GggCggT33D.20.000225
ORF1ab/nsp3954G954SGgcAgc33P.10.000047
ORF1ab/nsp3954G954GggCggT22AY.1200.000074
ORF1ab/nsp3954G954GggCggT22AY.200.000078
ORF1ab/nsp3954G954SGgcAgc22AY.30.00002
ORF1ab/nsp3954G954SGGcTCc12AY.390.000025
ORF1ab/nsp3954G954SGgcAgc12AY.390.000025
ORF1ab/nsp3954G954delGGC---22AY.40.000003
ORF1ab/nsp3954G954CGgcTgc22AY.4.50.000215
ORF1ab/nsp3954G954GggCggT12AY.600.000938
ORF1ab/nsp3954G954GggCggA12AY.600.000938
ORF1ab/nsp3954G954GggCggT22AY.670.000929
ORF1ab/nsp3954G954GggCggT22AY.9.20.000073
ORF1ab/nsp3954G954AgGcgCc22B.1.10.000036
ORF1ab/nsp3954G954GggCggT22B.1.1.3980.006452
ORF1ab/nsp3954G954CGgcTgc22B.1.1.70.000002
ORF1ab/nsp3954G954GggCggT22B.1.160.130.055556
ORF1ab/nsp3954G954DgGcgAc22B.1.1770.000026
ORF1ab/nsp3954G954SGgcAgc22B.1.1770.000026
ORF1ab/nsp3954G954GggCggT22B.1.214.20.001199
ORF1ab/nsp3954G954SGgcAgc22B.1.2210.000142
ORF1ab/nsp3954G954GggCggT22B.1.258.170.000208
ORF1ab/nsp3954G954delGGC---22B.1.360.000292
ORF1ab/nsp3954G954GggCggT22B.1.3750.001639
ORF1ab/nsp3954G954GggCggT22B.1.4130.008511
ORF1ab/nsp3954G954GggCggT12B.1.466.20.000391
ORF1ab/nsp3954G954GggCggA12B.1.466.20.000391
ORF1ab/nsp3954G954GggCggT22B.1.5240.002813
ORF1ab/nsp3954G954GggCggT22B.1.5250.000226
ORF1ab/nsp3954G954GggCggA22B.1.930.001867
ORF1ab/nsp3954G954GggCggT22P.1.170.000324
ORF1ab/nsp3954G954GggCggT22P.1.60.003891
ORF1ab/nsp3954G954EgGCgAA110.055556
ORF1ab/nsp3954G954SGgcAgc110.055556
ORF1ab/nsp3954G954RGgCAgA110.055556
ORF1ab/nsp3954G954DgGcgAc110.055556
ORF1ab/nsp3954G954KGGCAAA110.055556
ORF1ab/nsp3954G954NGGcAAc110.055556
ORF1ab/nsp3954G954VgGcgTc11A0.000387
ORF1ab/nsp3954G954GggCggT11A.10.000282
ORF1ab/nsp3954G954delGGC---11A.2.20.001689
ORF1ab/nsp3954G954NGGcAAc11All0
ORF1ab/nsp3954G954KGGCAAA11All0
ORF1ab/nsp3954G954HGGcCAc11All0
ORF1ab/nsp3954G954del1ggCgg-11All0
ORF1ab/nsp3954G954EgGCgAA11All0
ORF1ab/nsp3954G954del1ggCgg-11AY.1000.000046
ORF1ab/nsp3954G954VgGcgTc11AY.1030.000006
ORF1ab/nsp3954G954SGgCAgT11AY.1030.000006
ORF1ab/nsp3954G954GggCggT11AY.1170.000085
ORF1ab/nsp3954G954RGgCCgT11AY.1190.000035
ORF1ab/nsp3954G954VgGcgTc11AY.230.00007
ORF1ab/nsp3954G954GggCggA11AY.230.00007
ORF1ab/nsp3954G954GggCggA11AY.240.000431
ORF1ab/nsp3954G954VgGcgTc11AY.250.000006
ORF1ab/nsp3954G954DgGcgAc11AY.250.000006
ORF1ab/nsp3954G954GggCggT11AY.270.000065
ORF1ab/nsp3954G954CGgcTgc11AY.270.000065
ORF1ab/nsp3954G954SGgcAgc11AY.330.000067
ORF1ab/nsp3954G954DgGcgAc11AY.39.10.00004
ORF1ab/nsp3954G954GggCggT11AY.420.00004
ORF1ab/nsp3954G954delGGC---11AY.430.000004
ORF1ab/nsp3954G954SGgcAgc11AY.440.000006
ORF1ab/nsp3954G954DgGcgAc11AY.440.000006
ORF1ab/nsp3954G954GggCggT11AY.450.000122
ORF1ab/nsp3954G954GggCggT11AY.460.000104
ORF1ab/nsp3954G954DgGcgAc11AY.470.000031
ORF1ab/nsp3954G954GggCggT11AY.50.000021
ORF1ab/nsp3954G954DgGcgAc11AY.60.000041
ORF1ab/nsp3954G954GggCggT11AY.610.000105
ORF1ab/nsp3954G954GggCggA11AY.710.000475
ORF1ab/nsp3954G954GggCggT11AY.750.000056
ORF1ab/nsp3954G954SGgcAgc11AY.790.001211
ORF1ab/nsp3954G954GggCggA11AY.850.000427
ORF1ab/nsp3954G954GggCggT11AY.860.00083
ORF1ab/nsp3954G954SGgcAgc11AY.9.20.000037
ORF1ab/nsp3954G954GggCggT11AY.980.000079
ORF1ab/nsp3954G954SGgcAgc11AY.98.10.000048
ORF1ab/nsp3954G954DgGcgAc11B0.000128
ORF1ab/nsp3954G954SGgcAgc11B0.000128
ORF1ab/nsp3954G954SGgcAgc11B.10.000009
ORF1ab/nsp3954G954VgGcgTc11B.10.000009
ORF1ab/nsp3954G954CGgcTgc11B.10.000009
ORF1ab/nsp3954G954RGgcCgc11B.10.000009
ORF1ab/nsp3954G954AgGcgCc11B.10.000009
ORF1ab/nsp3954G954delGGC---11B.10.000009
ORF1ab/nsp3954G954delGGC---11B.1.1.1420.017544
ORF1ab/nsp3954G954GggCggT11B.1.1.1570.000913
ORF1ab/nsp3954G954GggCggT11B.1.1.1610.003534
ORF1ab/nsp3954G954GggCggT11B.1.1.3010.001179
ORF1ab/nsp3954G954GggCggA11B.1.1.3060.000438
ORF1ab/nsp3954G954GggCggT11B.1.1.3180.000302
ORF1ab/nsp3954G954GggCggT11B.1.1.3480.000796
ORF1ab/nsp3954G954GggCggT11B.1.1.4360.025641
ORF1ab/nsp3954G954GggCggA11B.1.1.500.000679
ORF1ab/nsp3954G954VgGcgTc11B.1.1.70.000001
ORF1ab/nsp3954G954AgGcgCc11B.1.1.70.000001
ORF1ab/nsp3954G954delGGC---11B.1.1.70.000001
ORF1ab/nsp3954G954GggCggT11B.1.1040.00369
ORF1ab/nsp3954G954DgGcgAc11B.1.140.017544
ORF1ab/nsp3954G954DgGcgAc11B.1.1600.000031
ORF1ab/nsp3954G954GggCggT11B.1.177.570.000281
ORF1ab/nsp3954G954GggCggT11B.1.177.600.000218
ORF1ab/nsp3954G954DgGcgAc11B.1.177.750.001041
ORF1ab/nsp3954G954GggCggA11B.1.177.810.000189
ORF1ab/nsp3954G954VgGcgTc11B.1.20.000009
ORF1ab/nsp3954G954GggCggT11B.1.243.10.022222
ORF1ab/nsp3954G954HGGcCAc11B.1.2580.000067
ORF1ab/nsp3954G954delGGC---11B.1.3190.003049
ORF1ab/nsp3954G954GggCggT11B.1.3360.002439
ORF1ab/nsp3954G954GggCggT11B.1.3500.002933
ORF1ab/nsp3954G954GggCggT11B.1.3510.00003
ORF1ab/nsp3954G954GggCggT11B.1.3560.001727
ORF1ab/nsp3954G954GggCggT11B.1.360.000146
ORF1ab/nsp3954G954GggCggT11B.1.36.190.009259
ORF1ab/nsp3954G954GggCggT11B.1.3620.001541
ORF1ab/nsp3954G954GggCggT11B.1.3690.000285
ORF1ab/nsp3954G954GggCggT11B.1.3960.000706
ORF1ab/nsp3954G954GggCggT11B.1.3990.001934
ORF1ab/nsp3954G954SGgcAgc11B.1.4290.000024
ORF1ab/nsp3954G954DgGcgAc11B.1.4290.000024
ORF1ab/nsp3954G954GggCggA11B.1.5170.000427
ORF1ab/nsp3954G954VgGcgTc11B.1.5260.000024
ORF1ab/nsp3954G954GggCggT11B.1.5770.000687
ORF1ab/nsp3954G954DgGcgAc11B.1.6060.006024
ORF1ab/nsp3954G954GggCggA11B.1.6090.000479
ORF1ab/nsp3954G954SGgcAgc11B.1.617.20.000004
ORF1ab/nsp3954G954GggCggT11B.1.6230.000536
ORF1ab/nsp3954G954delGGC---11B.150.017544
ORF1ab/nsp3954G954delGGC---11B.340.013699
ORF1ab/nsp3954G954GggCggT11C.10.002392
ORF1ab/nsp3954G954GggCggT11C.36.30.000567
ORF1ab/nsp3954G954SGgcAgc11D.20.000075
ORF1ab/nsp3954G954GggCggT11P.1.10.000318
ORF1ab/nsp3954G954SGgcAgc11P.1.140.000048

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.