CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 163

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
ORF3a163V163InonsynGtAAtT191517320.90443925879-25881
ORF3a163V163InonsynGtaAta19151830.095561425879-25881
ORF3a163V163LnonsynGtaTta154114690.95327725879-25881
ORF3a163V163LnonsynGtaCta1541720.046722925879-25881
ORF3a163V163VsyngtAgtT2871620.5644625879-25881
ORF3a163V163VsyngtAgtG2871200.41811825879-25881
ORF3a163V163VsyngtAgtC28750.017421625879-25881
ORF3a163V163AnonsyngTagCa248248125879-25881
ORF3a163V163deldelGTA---6767125879-25881
ORF3a163V163GnonsyngTagGa66125879-25881
ORF3a163V163TnonsynGTaACa22125879-25881
ORF3a163V163del2delGTa--a210.525879-25881
ORF3a163V163del2delgTAg--210.525879-25881
ORF3a163V163DnonsyngTAgAT11125879-25881

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF3a163V163IGtAAtT17321915All0.000331
ORF3a163V163IGtaAta1831915All0.000035
ORF3a163V163IGtAAtT16291635B.1.177.540.987871
ORF3a163V163IGtaAta61635B.1.177.540.003639
ORF3a163V163LGtaTta14691541All0.000281
ORF3a163V163LGtaCta721541All0.000014
ORF3a163V163LGtaTta292292AY.270.018898
ORF3a163V163VgtAgtT162287All0.000031
ORF3a163V163VgtAgtG120287All0.000023
ORF3a163V163VgtAgtC5287All0.000001
ORF3a163V163AgTagCa248248All0.000047
ORF3a163V163LGtaTta166201B.1.1.70.000149
ORF3a163V163LGtaCta35201B.1.1.70.000031
ORF3a163V163LGtaTta8081AY.40.000125
ORF3a163V163LGtaCta181AY.40.000002
ORF3a163V163LGtaTta6880AY.430.000301
ORF3a163V163LGtaCta1280AY.430.000053
ORF3a163V163LGtaTta7074B.1.617.20.000264
ORF3a163V163LGtaCta474B.1.617.20.000015
ORF3a163V163LGtaTta7272B.1.1.390.036697
ORF3a163V163LGtaTta6969B.10.000632
ORF3a163V163IGtaAta6969B.1.1.70.000062
ORF3a163V163delGTA---6767All0.000013
ORF3a163V163AgTagCa6767B.1.1.70.00006
ORF3a163V163AgTagCa5555B.1.20.000484
ORF3a163V163LGtaTta5050AY.370.015803
ORF3a163V163LGtaTta4444B.1.5680.048889
ORF3a163V163IGtAAtT4343V.10.977273
ORF3a163V163VgtAgtT2841AY.250.000168
ORF3a163V163VgtAgtG1341AY.250.000078
ORF3a163V163VgtAgtT4040B.1.258.30.067002
ORF3a163V163LGtaTta3535B.1.1.5190.00139
ORF3a163V163IGtAAtT3131V.21
ORF3a163V163LGtaTta3030AY.440.000183
ORF3a163V163VgtAgtT2828AY.1030.000174
ORF3a163V163IGtaAta2626B.1.1.2840.002792
ORF3a163V163LGtaTta2626P.1.140.001243
ORF3a163V163IGtAAtT1325B.10.000119
ORF3a163V163IGtaAta1225B.10.00011
ORF3a163V163LGtaTta1724AY.1020.000451
ORF3a163V163LGtaCta724AY.1020.000186
ORF3a163V163AgTagCa2323AY.250.000138
ORF3a163V163VgtAgtG1121B.1.1770.000145
ORF3a163V163VgtAgtT621B.1.1770.000079
ORF3a163V163VgtAgtC421B.1.1770.000053
ORF3a163V163LGtaTta1620B.1.20.000141
ORF3a163V163LGtaCta420B.1.20.000035
ORF3a163V163delGTA---1919B.1.1.70.000017
ORF3a163V163LGtaTta1818AY.9.20.000661
ORF3a163V163LGtaTta1818B.1.10.000327
ORF3a163V163LGtaTta1717AY.260.000481
ORF3a163V163LGtaTta1717B.1.1460.072034
ORF3a163V163LGtaTta1717B.1.1770.000224
ORF3a163V163IGtAAtT1017B.1.1770.000132
ORF3a163V163IGtaAta717B.1.1770.000092
ORF3a163V163LGtaTta1616AY.330.001068
ORF3a163V163LGtaTta1515AY.1030.000093
ORF3a163V163VgtAgtG1215B.1.1.70.000011
ORF3a163V163VgtAgtT315B.1.1.70.000003
ORF3a163V163LGtaTta1314AY.390.000321
ORF3a163V163LGtaCta114AY.390.000025
ORF3a163V163LGtaTta1414AY.470.000435
ORF3a163V163VgtAgtT1314B.10.000119
ORF3a163V163VgtAgtG114B.10.000009
ORF3a163V163AgTagCa1313AY.1130.001851
ORF3a163V163VgtAgtG1313AY.99.20.001198
ORF3a163V163VgtAgtT713B.1.617.20.000026
ORF3a163V163VgtAgtG613B.1.617.20.000023
ORF3a163V163LGtaTta1313P.1.150.00302
ORF3a163V163AgTagCa1212B.1.177.750.012487
ORF3a163V163LGtaTta1212B.1.3510.000357
ORF3a163V163VgtAgtG1212B.1.5170.005124
ORF3a163V163LGtaTta1212P.10.000189
ORF3a163V163LGtaTta1111B.1.1.2040.033435
ORF3a163V163LGtaTta810AY.250.000048
ORF3a163V163LGtaCta210AY.250.000012
ORF3a163V163AgTagCa1010AY.40.000016
ORF3a163V163LGtaTta1010B.1.621.10.005058
ORF3a163V163LGtaTta99A.190.084906
ORF3a163V163LGtaTta99AY.39.1.10.006522
ORF3a163V163LGtaTta99B.1.3620.013867
ORF3a163V163LGtaTta88AY.1210.001083
ORF3a163V163LGtaTta88AY.30.00008
ORF3a163V163LGtaTta88AY.99.20.000737
ORF3a163V163AgTagCa88B.1.617.20.00003
ORF3a163V163IGtaAta77AY.40.000011
ORF3a163V163VgtAgtG67AY.430.000027
ORF3a163V163VgtAgtT17AY.430.000004
ORF3a163V163VgtAgtG47AY.440.000024
ORF3a163V163VgtAgtT37AY.440.000018
ORF3a163V163LGtaTta77AY.46.60.000505
ORF3a163V163VgtAgtG77B.1.2430.000487
ORF3a163V163LGtaTta77B.1.617.10.000903
ORF3a163V163IGtaAta77B.1.617.20.000026
ORF3a163V163IGtaAta77P.10.00011
ORF3a163V163AgTagCa77Q.20.004294
ORF3a163V163GgTagGa66All0.000001
ORF3a163V163IGtaAta66AY.1020.000159
ORF3a163V163LGtaTta66AY.116.10.001869
ORF3a163V163AgTagCa66AY.1190.000212
ORF3a163V163LGtaTta66AY.200.000233
ORF3a163V163AgTagCa66B.1.1.5190.000238
ORF3a163V163VgtAgtT35AY.1020.00008
ORF3a163V163VgtAgtG25AY.1020.000053
ORF3a163V163LGtaTta55AY.1200.000186
ORF3a163V163VgtAgtG55AY.260.000142
ORF3a163V163delGTA---55AY.430.000022
ORF3a163V163IGtaAta55AY.440.00003
ORF3a163V163delGTA---55B.10.000046
ORF3a163V163IGtAAtT35B.1.177.40.000633
ORF3a163V163IGtaAta25B.1.177.40.000422
ORF3a163V163VgtAgtT55B.1.177.540.003032
ORF3a163V163LGtaTta44AY.1130.00057
ORF3a163V163VgtAgtT44AY.30.00004
ORF3a163V163LGtaTta44AY.380.001997
ORF3a163V163VgtAgtT34AY.40.000005
ORF3a163V163VgtAgtG14AY.40.000002
ORF3a163V163AgTagCa44AY.430.000018
ORF3a163V163AgTagCa44AY.50.000083
ORF3a163V163VgtAgtG44AY.920.001149
ORF3a163V163IGtaAta44AY.98.10.000194
ORF3a163V163IGtaAta44B.1.1.5190.000159
ORF3a163V163GgTagGa44B.1.1.5190.000159
ORF3a163V163LGtaTta44B.1.1600.000125
ORF3a163V163VgtAgtG34B.1.20.000026
ORF3a163V163VgtAgtT14B.1.20.000009
ORF3a163V163LGtaTta34B.1.4290.000071
ORF3a163V163LGtaCta14B.1.4290.000024
ORF3a163V163LGtaTta44B.1.5260.000094
ORF3a163V163AgTagCa33AY.1020.00008
ORF3a163V163LGtaTta23AY.290.000032
ORF3a163V163LGtaCta13AY.290.000016
ORF3a163V163LGtaTta33AY.340.000291
ORF3a163V163LGtaTta33AY.4.40.001227
ORF3a163V163LGtaTta33AY.4.50.000322
ORF3a163V163LGtaTta33AY.450.000365
ORF3a163V163IGtaAta33AY.50.000062
ORF3a163V163LGtaTta23AY.50.000041
ORF3a163V163LGtaCta13AY.50.000021
ORF3a163V163VgtAgtG33AY.610.000314
ORF3a163V163LGtaTta33AY.840.001312
ORF3a163V163LGtaTta33B.1.1.2220.000612
ORF3a163V163LGtaTta33B.1.2210.000213
ORF3a163V163LGtaTta33B.1.2430.000209
ORF3a163V163LGtaTta23B.1.360.000292
ORF3a163V163LGtaCta13B.1.360.000146
ORF3a163V163VgtAgtT33B.1.3890.003006
ORF3a163V163LGtaTta33B.1.4060.018182
ORF3a163V163AgTagCa33P.10.000047
ORF3a163V163AgTagCa33P.1.170.000485
ORF3a163V163delGTA---220.111111
ORF3a163V163AgTagCa22AD.20.000438
ORF3a163V163TGTaACa22All0
ORF3a163V163del2gTAg--12All0
ORF3a163V163del2GTa--a12All0
ORF3a163V163IGtaAta22AY.1000.000092
ORF3a163V163IGtaAta22AY.1030.000012
ORF3a163V163AgTagCa22AY.1030.000012
ORF3a163V163IGtaAta22AY.1190.000071
ORF3a163V163AgTagCa22AY.1200.000074
ORF3a163V163LGtaTta22AY.120.10.000642
ORF3a163V163LGtaTta22AY.130.000322
ORF3a163V163IGtaAta22AY.200.000078
ORF3a163V163LGtaTta22AY.29.10.000441
ORF3a163V163AgTagCa22AY.390.000049
ORF3a163V163LGtaTta22AY.410.000588
ORF3a163V163LGtaTta22AY.46.50.000397
ORF3a163V163LGtaTta22AY.5.40.000553
ORF3a163V163AgTagCa22AY.540.000191
ORF3a163V163LGtaTta22AY.90.000135
ORF3a163V163VgtAgtG22AY.980.000158
ORF3a163V163LGtaTta22AY.980.000158
ORF3a163V163delGTA---22B.1.1.3150.016949
ORF3a163V163LGtaTta22B.1.1.3680.006173
ORF3a163V163LGtaTta22B.1.1.3690.000892
ORF3a163V163TGTaACa22B.1.140.035088
ORF3a163V163delGTA---22B.1.1770.000026
ORF3a163V163VgtAgtT22B.1.177.40.000422
ORF3a163V163IGtAAtT22B.1.177.560.001335
ORF3a163V163LGtaTta22B.1.2340.000264
ORF3a163V163AgTagCa22B.1.2340.000264
ORF3a163V163LGtaTta22B.1.2580.000133
ORF3a163V163LGtaTta22B.1.3110.000549
ORF3a163V163VgtAgtG22B.1.36.10.002281
ORF3a163V163LGtaTta22B.1.36.290.001035
ORF3a163V163VgtAgtG22B.1.3690.00057
ORF3a163V163LGtaTta22B.1.5960.000174
ORF3a163V163delGTA---22B.1.617.20.000008
ORF3a163V163delGTA---22B.1.6210.000177
ORF3a163V163LGtaCta12C.370.000116
ORF3a163V163LGtaTta12C.370.000116
ORF3a163V163LGtaTta22D.20.00015
ORF3a163V163delGTA---22P.10.000032
ORF3a163V163LGtaTta22P.1.100.000539
ORF3a163V163delGTA---22P.1.150.000465
ORF3a163V163LGtaTta11A0.000387
ORF3a163V163delGTA---11A0.000387
ORF3a163V163LGtaTta11A.23.10.000704
ORF3a163V163delGTA---11AD.20.000219
ORF3a163V163DgTAgAT11All0
ORF3a163V163LGtaTta11AV.10.005051
ORF3a163V163LGtaTta11AY.1000.000046
ORF3a163V163LGtaTta11AY.1100.000113
ORF3a163V163LGtaTta11AY.1170.000085
ORF3a163V163LGtaTta11AY.1180.000063
ORF3a163V163del2gTAg--11AY.1180.000063
ORF3a163V163VgtAgtG11AY.1190.000035
ORF3a163V163LGtaTta11AY.1190.000035
ORF3a163V163delGTA---11AY.1200.000037
ORF3a163V163VgtAgtG11AY.120.10.000321
ORF3a163V163VgtAgtT11AY.1210.000135
ORF3a163V163VgtAgtT11AY.140.000088
ORF3a163V163LGtaTta11AY.140.000088
ORF3a163V163LGtaTta11AY.230.00007
ORF3a163V163delGTA---11AY.250.000006
ORF3a163V163VgtAgtT11AY.290.000016
ORF3a163V163delGTA---11AY.290.000016
ORF3a163V163LGtaTta11AY.3.10.000085
ORF3a163V163AgTagCa11AY.3.10.000085
ORF3a163V163VgtAgtT11AY.370.000316
ORF3a163V163LGtaTta11AY.39.10.00004
ORF3a163V163delGTA---11AY.40.000002
ORF3a163V163VgtAgtG11AY.4.20.000022
ORF3a163V163LGtaTta11AY.4.20.000022
ORF3a163V163delGTA---11AY.4.50.000107
ORF3a163V163LGtaTta11AY.420.00004
ORF3a163V163VgtAgtG11AY.420.00004
ORF3a163V163AgTagCa11AY.420.00004
ORF3a163V163GgTagGa11AY.440.000006
ORF3a163V163LGtaTta11AY.460.000104
ORF3a163V163VgtAgtG11AY.460.000104
ORF3a163V163AgTagCa11AY.460.000104
ORF3a163V163VgtAgtT11AY.470.000031
ORF3a163V163VgtAgtT11AY.5.30.000337
ORF3a163V163VgtAgtG11AY.510.000909
ORF3a163V163LGtaTta11AY.60.000041
ORF3a163V163LGtaTta11AY.610.000105
ORF3a163V163LGtaTta11AY.660.00107
ORF3a163V163LGtaTta11AY.670.000464
ORF3a163V163LGtaTta11AY.680.000274
ORF3a163V163delGTA---11AY.680.000274
ORF3a163V163DgTAgAT11AY.7.20.000559
ORF3a163V163VgtAgtT11AY.7.20.000559
ORF3a163V163LGtaTta11AY.710.000475
ORF3a163V163IGtaAta11AY.720.001361
ORF3a163V163IGtaAta11AY.820.001357
ORF3a163V163LGtaTta11AY.850.000427
ORF3a163V163LGtaTta11AY.940.000443
ORF3a163V163LGtaTta11AY.950.000761
ORF3a163V163LGtaTta11B0.000128
ORF3a163V163delGTA---11B0.000128
ORF3a163V163VgtAgtT11B0.000128
ORF3a163V163del2GTa--a11B.10.000009
ORF3a163V163AgTagCa11B.10.000009
ORF3a163V163IGtaAta11B.1.10.000018
ORF3a163V163VgtAgtT11B.1.10.000018
ORF3a163V163LGtaTta11B.1.1.1520.04
ORF3a163V163delGTA---11B.1.1.2140.000055
ORF3a163V163LGtaTta11B.1.1.2910.000742
ORF3a163V163AgTagCa11B.1.1.3010.001179
ORF3a163V163LGtaTta11B.1.1.3260.001761
ORF3a163V163LGtaTta11B.1.1.3970.002252
ORF3a163V163VgtAgtG11B.1.1.3980.003226
ORF3a163V163delGTA---11B.1.1.4090.002833
ORF3a163V163LGtaTta11B.1.1.4330.001425
ORF3a163V163IGtaAta11B.1.1.5130.012346
ORF3a163V163LGtaTta11B.1.1.5260.003546
ORF3a163V163LGtaTta11B.1.1120.005181
ORF3a163V163delGTA---11B.1.1600.000031
ORF3a163V163IGtaAta11B.1.160.160.000929
ORF3a163V163delGTA---11B.1.160.230.004831
ORF3a163V163LGtaTta11B.1.1690.014925
ORF3a163V163AgTagCa11B.1.1770.000013
ORF3a163V163delGTA---11B.1.177.40.000211
ORF3a163V163delGTA---11B.1.177.510.004566
ORF3a163V163LGtaTta11B.1.177.570.000281
ORF3a163V163delGTA---11B.1.177.620.001192
ORF3a163V163LGtaTta11B.1.177.70.000165
ORF3a163V163AgTagCa11B.1.177.70.000165
ORF3a163V163AgTagCa11B.1.177.730.000566
ORF3a163V163LGtaTta11B.1.177.880.012346
ORF3a163V163delGTA---11B.1.2210.000071
ORF3a163V163GgTagGa11B.1.2210.000071
ORF3a163V163LGtaTta11B.1.2390.001221
ORF3a163V163LGtaTta11B.1.258.110.000396
ORF3a163V163delGTA---11B.1.258.160.001637
ORF3a163V163LGtaTta11B.1.3190.003049
ORF3a163V163IGtaAta11B.1.3360.002439
ORF3a163V163AgTagCa11B.1.3510.00003
ORF3a163V163LGtaTta11B.1.351.30.000876
ORF3a163V163IGtaAta11B.1.36.180.00042
ORF3a163V163LGtaTta11B.1.36.190.009259
ORF3a163V163LGtaTta11B.1.36.220.001208
ORF3a163V163LGtaTta11B.1.36.380.001642
ORF3a163V163VgtAgtT11B.1.3670.000792
ORF3a163V163AgTagCa11B.1.3690.000285
ORF3a163V163LGtaTta11B.1.3890.001002
ORF3a163V163LGtaTta11B.1.3960.000706
ORF3a163V163delGTA---11B.1.416.10.001563
ORF3a163V163LGtaTta11B.1.4250.002994
ORF3a163V163IGtaAta11B.1.4270.00005
ORF3a163V163delGTA---11B.1.4270.00005
ORF3a163V163AgTagCa11B.1.4350.011364
ORF3a163V163VgtAgtG11B.1.4620.007246
ORF3a163V163LGtaTta11B.1.4620.007246
ORF3a163V163LGtaTta11B.1.4990.00105
ORF3a163V163VgtAgtT11B.1.5250.000113
ORF3a163V163delGTA---11B.1.5250.000113
ORF3a163V163LGtaTta11B.1.5380.008065
ORF3a163V163LGtaTta11B.1.5760.000907
ORF3a163V163VgtAgtC11B.1.5950.000261
ORF3a163V163delGTA---11B.1.5960.000087
ORF3a163V163VgtAgtG11B.1.6090.000479
ORF3a163V163IGtaAta11B.1.617.10.000129
ORF3a163V163delGTA---11B.1.617.10.000129
ORF3a163V163VgtAgtG11B.1.6210.000089
ORF3a163V163AgTagCa11B.1.6210.000089
ORF3a163V163delGTA---11B.1.6380.052632
ORF3a163V163LGtaCta11B.470.020408
ORF3a163V163VgtAgtG11B.60.00091
ORF3a163V163IGtaAta11C.160.00106
ORF3a163V163LGtaTta11N.50.001767
ORF3a163V163VgtAgtT11P.1.140.000048
ORF3a163V163LGtaTta11P.1.160.000374
ORF3a163V163LGtaTta11P.1.170.000162
ORF3a163V163LGtaTta11P.1.17.10.000875
ORF3a163V163IGtAAtT11U.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.