CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : CodonNum = 281

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/nsp4281S281SS3044SsyntcAtcG9367020.759395-9397
ORF1ab/nsp4281S281SS3044SsyntcAtcT9362330.2489329395-9397
ORF1ab/nsp4281S281SS3044SsyntcAtcC93610.001068389395-9397
ORF1ab/nsp4281S281LS3044LnonsyntCatTa8558540.998839395-9397
ORF1ab/nsp4281S281LS3044LnonsyntCAtTG85510.001169599395-9397
ORF1ab/nsp4281S281delS3044deldelTCA---656519395-9397
ORF1ab/nsp4281S281TS3044TnonsynTcaAca313119395-9397
ORF1ab/nsp4281S281PS3044PnonsynTcaCca171719395-9397
ORF1ab/nsp4281S281XS3044XnonsyntCatAa11100.9090919395-9397
ORF1ab/nsp4281S281XS3044XnonsyntCatGa1110.09090919395-9397
ORF1ab/nsp4281S281KS3044KnonsynTCaAAa6619395-9397
ORF1ab/nsp4281S281del1S3044del1deltcAtc-320.6666679395-9397
ORF1ab/nsp4281S281del1S3044del1deltCat-a310.3333339395-9397
ORF1ab/nsp4281S281IS3044InonsynTCAATC210.59395-9397
ORF1ab/nsp4281S281IS3044InonsynTCaATa210.59395-9397
ORF1ab/nsp4281S281AS3044AnonsynTcaGca1119395-9397
ORF1ab/nsp4281S281del2S3044del2delTCa--a1119395-9397

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/nsp4281S281StcAtcG702936All0.000134
ORF1ab/nsp4281S281StcAtcT233936All0.000045
ORF1ab/nsp4281S281StcAtcC1936All0
ORF1ab/nsp4281S281LtCatTa854855All0.000163
ORF1ab/nsp4281S281LtCAtTG1855All0
ORF1ab/nsp4281S281LtCatTa476476B.1.1.70.000426
ORF1ab/nsp4281S281StcAtcT204215B.1.1.70.000183
ORF1ab/nsp4281S281StcAtcG11215B.1.1.70.00001
ORF1ab/nsp4281S281StcAtcG188188B.1.517.10.989474
ORF1ab/nsp4281S281StcAtcG125125B.1.5170.053373
ORF1ab/nsp4281S281StcAtcG115117AY.40.000179
ORF1ab/nsp4281S281StcAtcT2117AY.40.000003
ORF1ab/nsp4281S281LtCatTa9696B.1.5260.002256
ORF1ab/nsp4281S281delTCA---6565All0.000012
ORF1ab/nsp4281S281LtCatTa6464P.10.001008
ORF1ab/nsp4281S281StcAtcG5151B.1.3480.927273
ORF1ab/nsp4281S281StcAtcG3434B.1.4290.0008
ORF1ab/nsp4281S281TTcaAca3131All0.000006
ORF1ab/nsp4281S281StcAtcG2130AY.1030.00013
ORF1ab/nsp4281S281StcAtcT930AY.1030.000056
ORF1ab/nsp4281S281StcAtcG2929AY.440.000177
ORF1ab/nsp4281S281delTCA---2727B.1.1.70.000024
ORF1ab/nsp4281S281LtCatTa2727B.1.617.20.000102
ORF1ab/nsp4281S281StcAtcG2021B.1.617.20.000075
ORF1ab/nsp4281S281StcAtcT121B.1.617.20.000004
ORF1ab/nsp4281S281PTcaCca1717All0.000003
ORF1ab/nsp4281S281LtCatTa1717B.1.4290.0004
ORF1ab/nsp4281S281LtCatTa1717B.1.6370.001242
ORF1ab/nsp4281S281XtCatAa1011All0.000002
ORF1ab/nsp4281S281XtCatGa111All0
ORF1ab/nsp4281S281StcAtcG1010AY.430.000044
ORF1ab/nsp4281S281StcAtcG610B.1.10.000109
ORF1ab/nsp4281S281StcAtcT410B.1.10.000073
ORF1ab/nsp4281S281LtCatTa1010B.1.1.5190.000397
ORF1ab/nsp4281S281LtCatTa1010P.1.100.002695
ORF1ab/nsp4281S281StcAtcG99B.1.177.350.00622
ORF1ab/nsp4281S281LtCatTa99B.1.20.000079
ORF1ab/nsp4281S281LtCatTa99B.1.3510.000268
ORF1ab/nsp4281S281StcAtcG88AY.250.000048
ORF1ab/nsp4281S281LtCatTa77AY.260.000198
ORF1ab/nsp4281S281StcAtcT47B.10.000037
ORF1ab/nsp4281S281StcAtcG37B.10.000027
ORF1ab/nsp4281S281TTcaAca77B.1.1.70.000006
ORF1ab/nsp4281S281LtCatTa77B.1.4270.000353
ORF1ab/nsp4281S281TTcaAca77B.1.5250.000792
ORF1ab/nsp4281S281KTCaAAa66All0.000001
ORF1ab/nsp4281S281StcAtcG66AY.60.000247
ORF1ab/nsp4281S281LtCatTa66B.1.1.3180.001811
ORF1ab/nsp4281S281LtCatTa66P.1.170.000971
ORF1ab/nsp4281S281LtCatTa66R.10.00054
ORF1ab/nsp4281S281LtCatTa55AY.250.00003
ORF1ab/nsp4281S281LtCatTa55AY.30.00005
ORF1ab/nsp4281S281delTCA---55AY.40.000008
ORF1ab/nsp4281S281LtCatTa55B.1.1.5230.007812
ORF1ab/nsp4281S281delTCA---55B.1.1770.000066
ORF1ab/nsp4281S281LtCatTa55B.1.6210.000443
ORF1ab/nsp4281S281LtCatTa55Q.30.000725
ORF1ab/nsp4281S281PTcaCca44AY.40.000006
ORF1ab/nsp4281S281StcAtcG44AY.750.000224
ORF1ab/nsp4281S281LtCatTa44B.1.1.280.001245
ORF1ab/nsp4281S281StcAtcG44B.1.20.000035
ORF1ab/nsp4281S281del1tcAtc-23All0
ORF1ab/nsp4281S281del1tCat-a13All0
ORF1ab/nsp4281S281LtCatTa33AY.130.000483
ORF1ab/nsp4281S281TTcaAca33AY.40.000005
ORF1ab/nsp4281S281delTCA---33AY.4.50.000322
ORF1ab/nsp4281S281LtCatTa33AY.440.000018
ORF1ab/nsp4281S281StcAtcG33AY.730.001996
ORF1ab/nsp4281S281StcAtcG33B.1.1.100.003344
ORF1ab/nsp4281S281StcAtcG33B.1.1.410.018987
ORF1ab/nsp4281S281PTcaCca33B.1.1.70.000003
ORF1ab/nsp4281S281LtCatTa33B.1.1770.00004
ORF1ab/nsp4281S281StcAtcG33B.1.3510.000089
ORF1ab/nsp4281S281StcAtcG33B.1.4270.000151
ORF1ab/nsp4281S281TTcaAca33B.1.5260.000071
ORF1ab/nsp4281S281delTCA---33B.1.617.20.000011
ORF1ab/nsp4281S281LtCatTa33B.1.621.10.001517
ORF1ab/nsp4281S281LtCatTa33C.370.000348
ORF1ab/nsp4281S281StcAtcG33P.10.000047
ORF1ab/nsp4281S281LtCatTa33P.1.130.002695
ORF1ab/nsp4281S281LtCatTa22A.2.50.000998
ORF1ab/nsp4281S281ITCaATa12All0
ORF1ab/nsp4281S281ITCAATC12All0
ORF1ab/nsp4281S281delTCA---22AY.1110.000366
ORF1ab/nsp4281S281StcAtcG22AY.1140.000462
ORF1ab/nsp4281S281StcAtcG22AY.200.000078
ORF1ab/nsp4281S281PTcaCca22AY.30.00002
ORF1ab/nsp4281S281LtCatTa12AY.40.000002
ORF1ab/nsp4281S281LtCAtTG12AY.40.000002
ORF1ab/nsp4281S281KTCaAAa22AY.440.000012
ORF1ab/nsp4281S281StcAtcG22AY.600.001876
ORF1ab/nsp4281S281StcAtcT22AY.980.000158
ORF1ab/nsp4281S281LtCatTa22AZ.30.00304
ORF1ab/nsp4281S281LtCatTa22B.10.000018
ORF1ab/nsp4281S281LtCatTa22B.1.10.000036
ORF1ab/nsp4281S281StcAtcG22B.1.1.2690.002706
ORF1ab/nsp4281S281StcAtcG22B.1.1.4160.00181
ORF1ab/nsp4281S281StcAtcG22B.1.1.5190.000079
ORF1ab/nsp4281S281XtCatGa12B.1.1.70.000001
ORF1ab/nsp4281S281XtCatAa12B.1.1.70.000001
ORF1ab/nsp4281S281StcAtcG22B.1.177.120.000303
ORF1ab/nsp4281S281StcAtcG22B.1.177.420.001789
ORF1ab/nsp4281S281LtCatTa22B.1.5750.000607
ORF1ab/nsp4281S281TTcaAca22B.1.617.20.000008
ORF1ab/nsp4281S281LtCatTa22B.1.6310.006734
ORF1ab/nsp4281S281LtCatTa22B.1.6360.013423
ORF1ab/nsp4281S281XtCatAa11A0.000387
ORF1ab/nsp4281S281LtCatTa11A.10.000282
ORF1ab/nsp4281S281StcAtcG11A.210.00277
ORF1ab/nsp4281S281ATcaGca11All0
ORF1ab/nsp4281S281del2TCa--a11All0
ORF1ab/nsp4281S281LtCatTa11AY.10.000396
ORF1ab/nsp4281S281LtCatTa11AY.100.00053
ORF1ab/nsp4281S281del1tcAtc-11AY.1020.000027
ORF1ab/nsp4281S281XtCatAa11AY.1030.000006
ORF1ab/nsp4281S281LtCatTa11AY.1030.000006
ORF1ab/nsp4281S281LtCatTa11AY.1130.000142
ORF1ab/nsp4281S281StcAtcG11AY.1170.000085
ORF1ab/nsp4281S281LtCatTa11AY.1200.000037
ORF1ab/nsp4281S281delTCA---11AY.1200.000037
ORF1ab/nsp4281S281LtCatTa11AY.20.000356
ORF1ab/nsp4281S281StcAtcG11AY.230.00007
ORF1ab/nsp4281S281StcAtcG11AY.290.000016
ORF1ab/nsp4281S281LtCatTa11AY.3.10.000085
ORF1ab/nsp4281S281StcAtcT11AY.310.018519
ORF1ab/nsp4281S281delTCA---11AY.360.000148
ORF1ab/nsp4281S281TTcaAca11AY.390.000025
ORF1ab/nsp4281S281LtCatTa11AY.390.000025
ORF1ab/nsp4281S281StcAtcG11AY.390.000025
ORF1ab/nsp4281S281ATcaGca11AY.40.000002
ORF1ab/nsp4281S281XtCatAa11AY.40.000002
ORF1ab/nsp4281S281StcAtcG11AY.4.10.000737
ORF1ab/nsp4281S281StcAtcG11AY.4.20.000022
ORF1ab/nsp4281S281StcAtcG11AY.420.00004
ORF1ab/nsp4281S281KTCaAAa11AY.420.00004
ORF1ab/nsp4281S281TTcaAca11AY.430.000004
ORF1ab/nsp4281S281delTCA---11AY.430.000004
ORF1ab/nsp4281S281del1tcAtc-11AY.440.000006
ORF1ab/nsp4281S281PTcaCca11AY.440.000006
ORF1ab/nsp4281S281TTcaAca11AY.440.000006
ORF1ab/nsp4281S281PTcaCca11AY.46.10.001027
ORF1ab/nsp4281S281StcAtcG11AY.46.20.000635
ORF1ab/nsp4281S281StcAtcG11AY.50.000021
ORF1ab/nsp4281S281KTCaAAa11AY.540.000095
ORF1ab/nsp4281S281StcAtcT11AY.590.00053
ORF1ab/nsp4281S281StcAtcT11AY.840.000437
ORF1ab/nsp4281S281delTCA---11AY.90.000068
ORF1ab/nsp4281S281StcAtcT11AY.9.20.000037
ORF1ab/nsp4281S281delTCA---11AY.9.20.000037
ORF1ab/nsp4281S281PTcaCca11AY.980.000079
ORF1ab/nsp4281S281StcAtcG11AY.99.20.000092
ORF1ab/nsp4281S281delTCA---11B0.000128
ORF1ab/nsp4281S281LtCatTa11B0.000128
ORF1ab/nsp4281S281XtCatAa11B.10.000009
ORF1ab/nsp4281S281PTcaCca11B.10.000009
ORF1ab/nsp4281S281delTCA---11B.10.000009
ORF1ab/nsp4281S281TTcaAca11B.10.000009
ORF1ab/nsp4281S281del1tCat-a11B.10.000009
ORF1ab/nsp4281S281delTCA---11B.1.10.000018
ORF1ab/nsp4281S281XtCatAa11B.1.10.000018
ORF1ab/nsp4281S281StcAtcG11B.1.1.2140.000055
ORF1ab/nsp4281S281del2TCa--a11B.1.1.2360.006897
ORF1ab/nsp4281S281StcAtcG11B.1.1.250.000569
ORF1ab/nsp4281S281delTCA---11B.1.1.370.000193
ORF1ab/nsp4281S281TTcaAca11B.1.1.5190.00004
ORF1ab/nsp4281S281XtCatAa11B.1.1.540.003021
ORF1ab/nsp4281S281KTCaAAa11B.1.1.70.000001
ORF1ab/nsp4281S281PTcaCca11B.1.160.140.002119
ORF1ab/nsp4281S281StcAtcT11B.1.1770.000013
ORF1ab/nsp4281S281StcAtcG11B.1.177.150.000631
ORF1ab/nsp4281S281delTCA---11B.1.177.170.000821
ORF1ab/nsp4281S281delTCA---11B.1.177.190.001431
ORF1ab/nsp4281S281StcAtcG11B.1.177.230.003236
ORF1ab/nsp4281S281LtCatTa11B.1.177.310.011494
ORF1ab/nsp4281S281delTCA---11B.1.177.540.000606
ORF1ab/nsp4281S281delTCA---11B.1.177.600.000218
ORF1ab/nsp4281S281delTCA---11B.1.177.810.000189
ORF1ab/nsp4281S281XtCatAa11B.1.177.860.000183
ORF1ab/nsp4281S281TTcaAca11B.1.20.000009
ORF1ab/nsp4281S281delTCA---11B.1.20.000009
ORF1ab/nsp4281S281StcAtcC11B.1.2100.002132
ORF1ab/nsp4281S281PTcaCca11B.1.2340.000132
ORF1ab/nsp4281S281StcAtcG11B.1.2430.00007
ORF1ab/nsp4281S281LtCatTa11B.1.258.140.00098
ORF1ab/nsp4281S281StcAtcG11B.1.258.170.000104
ORF1ab/nsp4281S281XtCatAa11B.1.3010.005917
ORF1ab/nsp4281S281StcAtcG11B.1.3240.001605
ORF1ab/nsp4281S281PTcaCca11B.1.3260.007576
ORF1ab/nsp4281S281LtCatTa11B.1.3490.000715
ORF1ab/nsp4281S281LtCatTa11B.1.3670.000792
ORF1ab/nsp4281S281LtCatTa11B.1.4000.000429
ORF1ab/nsp4281S281TTcaAca11B.1.4270.00005
ORF1ab/nsp4281S281LtCatTa11B.1.5250.000113
ORF1ab/nsp4281S281StcAtcT11B.1.5300.007143
ORF1ab/nsp4281S281StcAtcT11B.1.5330.009615
ORF1ab/nsp4281S281PTcaCca11B.1.5600.00463
ORF1ab/nsp4281S281XtCatAa11B.1.5610.000397
ORF1ab/nsp4281S281LtCatTa11B.1.5610.000397
ORF1ab/nsp4281S281ITCaATa11B.1.5610.000397
ORF1ab/nsp4281S281KTCaAAa11B.1.5610.000397
ORF1ab/nsp4281S281TTcaAca11B.1.5610.000397
ORF1ab/nsp4281S281StcAtcG11B.1.5960.000087
ORF1ab/nsp4281S281LtCatTa11B.1.5960.000087
ORF1ab/nsp4281S281TTcaAca11B.1.5970.00463
ORF1ab/nsp4281S281LtCatTa11B.1.617.10.000129
ORF1ab/nsp4281S281LtCatTa11B.1.6280.000352
ORF1ab/nsp4281S281delTCA---11B.150.017544
ORF1ab/nsp4281S281delTCA---11B.340.013699
ORF1ab/nsp4281S281delTCA---11B.4.40.018868
ORF1ab/nsp4281S281StcAtcG11B.6.60.000889
ORF1ab/nsp4281S281ITCAATC11C.350.000774
ORF1ab/nsp4281S281StcAtcG11C.360.000911
ORF1ab/nsp4281S281LtCatTa11C.36.30.000567
ORF1ab/nsp4281S281LtCatTa11C.36.3.10.002717
ORF1ab/nsp4281S281StcAtcG11N.60.007092
ORF1ab/nsp4281S281delTCA---11P.10.000016
ORF1ab/nsp4281S281StcAtcG11P.1.70.000319
ORF1ab/nsp4281S281LtCatTa11P.20.000187
ORF1ab/nsp4281S281StcAtcG11P.30.001595
ORF1ab/nsp4281S281delTCA---11Q.10.000126
ORF1ab/nsp4281S281LtCatTa11Q.40.000455
ORF1ab/nsp4281S281LtCatTa11Q.50.016949

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.