CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 275

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
ORF3a275L275FnonsynttGttT629561180.97188226215-26217
ORF3a275L275FnonsynttGttC62951770.028117626215-26217
ORF3a275L275LsynttGttA3312660.80362526215-26217
ORF3a275L275LsynTtgCtg331640.19335326215-26217
ORF3a275L275LsynTtGCtA33110.0030211526215-26217
ORF3a275L275SnonsyntTgtCg173173126215-26217
ORF3a275L275WnonsyntTgtGg2626126215-26217
ORF3a275L275XnonsyntTgtAg1212126215-26217
ORF3a275L275del1delttGtt-88126215-26217
ORF3a275L275VnonsynTtgGtg66126215-26217
ORF3a275L275deldelTTG---66126215-26217
ORF3a275L275del2deltTGt--55126215-26217
ORF3a275L275MnonsynTtgAtg22126215-26217

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF3a275L275FttGttT61186295All0.00117
ORF3a275L275FttGttC1776295All0.000034
ORF3a275L275FttGttT15931607AY.40.002479
ORF3a275L275FttGttC141607AY.40.000022
ORF3a275L275FttGttT10381130B.1.1.70.000929
ORF3a275L275FttGttC921130B.1.1.70.000082
ORF3a275L275FttGttT600600AY.700.125104
ORF3a275L275FttGttT583583B.1.1.4330.830484
ORF3a275L275LttGttA266331All0.000051
ORF3a275L275LTtgCtg64331All0.000012
ORF3a275L275LTtGCtA1331All0
ORF3a275L275FttGttT277288AY.440.001686
ORF3a275L275FttGttC11288AY.440.000067
ORF3a275L275FttGttT271271B.1.1.2140.015029
ORF3a275L275FttGttT260265B.1.617.20.000979
ORF3a275L275FttGttC5265B.1.617.20.000019
ORF3a275L275FttGttT203203B.1.1770.002673
ORF3a275L275StTgtCg173173All0.000033
ORF3a275L275FttGttT151157AY.430.000669
ORF3a275L275FttGttC6157AY.430.000027
ORF3a275L275StTgtCg100100AY.50.002065
ORF3a275L275LttGttA9395AY.440.000566
ORF3a275L275LTtgCtg295AY.440.000012
ORF3a275L275FttGttT8282B.1.20.000722
ORF3a275L275FttGttT4747B.1.360.006857
ORF3a275L275FttGttT4545AY.1030.000279
ORF3a275L275FttGttT4545C.1.20.191489
ORF3a275L275FttGttT3939B.1.1.2670.393939
ORF3a275L275FttGttT3537AY.250.000211
ORF3a275L275FttGttC237AY.250.000012
ORF3a275L275FttGttT3637AY.30.000358
ORF3a275L275FttGttC137AY.30.00001
ORF3a275L275FttGttT3537B.10.000321
ORF3a275L275FttGttC237B.10.000018
ORF3a275L275LttGttA2533B.1.1.70.000022
ORF3a275L275LTtgCtg733B.1.1.70.000006
ORF3a275L275LTtGCtA133B.1.1.70.000001
ORF3a275L275FttGttT3131B.1.5040.96875
ORF3a275L275FttGttT3131P.10.000488
ORF3a275L275FttGttT2930B.1.4290.000682
ORF3a275L275FttGttC130B.1.4290.000024
ORF3a275L275FttGttT2729AY.260.000764
ORF3a275L275FttGttC229AY.260.000057
ORF3a275L275FttGttT2828B.1.36.180.011765
ORF3a275L275LttGttA2528B.1.617.20.000094
ORF3a275L275LTtgCtg328B.1.617.20.000011
ORF3a275L275FttGttC1927AY.290.0003
ORF3a275L275FttGttT827AY.290.000126
ORF3a275L275WtTgtGg2626All0.000005
ORF3a275L275LttGttA1325AY.40.00002
ORF3a275L275LTtgCtg1225AY.40.000019
ORF3a275L275FttGttT2324B.1.10.000417
ORF3a275L275FttGttC124B.1.10.000018
ORF3a275L275FttGttT2222B.1.1.5190.000874
ORF3a275L275FttGttT2121AY.39.10.000832
ORF3a275L275FttGttT2121B.1.3510.000624
ORF3a275L275FttGttT2020AY.880.017683
ORF3a275L275FttGttT2020B.1.5170.00854
ORF3a275L275FttGttT1818AY.50.000372
ORF3a275L275FttGttT1818B.1.5260.000423
ORF3a275L275FttGttT1717B.1.1600.00053
ORF3a275L275FttGttT1717B.1.351.30.014899
ORF3a275L275StTgtCg1616B.1.1.70.000014
ORF3a275L275FttGttT1414AY.1020.000371
ORF3a275L275WtTgtGg1414AY.1180.000877
ORF3a275L275LTtgCtg1414B.10.000128
ORF3a275L275FttGttT1313AY.750.000728
ORF3a275L275FttGttT1313B.1.177.730.007361
ORF3a275L275LttGttA1313B.1.5960.001133
ORF3a275L275XtTgtAg1212All0.000002
ORF3a275L275FttGttT1212B.1.4270.000606
ORF3a275L275FttGttT1111B.1.351.20.003328
ORF3a275L275WtTgtGg1111B.1.5260.000259
ORF3a275L275FttGttT810AY.1000.000368
ORF3a275L275FttGttC210AY.1000.000092
ORF3a275L275FttGttT1010AY.390.000247
ORF3a275L275StTgtCg1010AY.40.000016
ORF3a275L275FttGttT910AY.420.000362
ORF3a275L275FttGttC110AY.420.00004
ORF3a275L275FttGttT1010AY.98.10.000484
ORF3a275L275FttGttT1010B.1.1.3180.003018
ORF3a275L275LttGttA1010B.1.3510.000297
ORF3a275L275FttGttT59AY.1190.000177
ORF3a275L275FttGttC49AY.1190.000141
ORF3a275L275FttGttT99AY.360.001334
ORF3a275L275FttGttT89B.1.1.3060.003507
ORF3a275L275FttGttC19B.1.1.3060.000438
ORF3a275L275FttGttC69B.1.2210.000426
ORF3a275L275FttGttT39B.1.2210.000213
ORF3a275L275FttGttT99B.1.2580.000599
ORF3a275L275StTgtCg99B.1.617.20.000034
ORF3a275L275del1ttGtt-88All0.000002
ORF3a275L275StTgtCg88B.10.000073
ORF3a275L275LttGttA88B.1.20.00007
ORF3a275L275LTtgCtg88P.10.000126
ORF3a275L275FttGttT77AY.1210.000947
ORF3a275L275FttGttT77AY.230.000488
ORF3a275L275FttGttT77AY.3.10.000597
ORF3a275L275FttGttT77AY.680.001916
ORF3a275L275FttGttT77AY.920.002011
ORF3a275L275delTTG---66All0.000001
ORF3a275L275VTtgGtg66All0.000001
ORF3a275L275FttGttT66AY.610.000629
ORF3a275L275FttGttT66B.1.2430.000418
ORF3a275L275del2tTGt--55All0.000001
ORF3a275L275LttGttA55AY.1030.000031
ORF3a275L275FttGttT55AY.200.000194
ORF3a275L275XtTgtAg55AY.40.000008
ORF3a275L275FttGttT55AY.4.20.000108
ORF3a275L275FttGttT55AY.450.000608
ORF3a275L275FttGttT55AY.75.10.000902
ORF3a275L275LttGttA55AY.98.10.000242
ORF3a275L275FttGttT55B.1.1.10.001633
ORF3a275L275FttGttT55B.1.3620.007704
ORF3a275L275FttGttT55B.1.5090.004329
ORF3a275L275LttGttA55B.1.6210.000443
ORF3a275L275FttGttT55P.20.000933
ORF3a275L275FttGttT44AY.1170.000338
ORF3a275L275LttGttA44AY.260.000113
ORF3a275L275LttGttA44AY.430.000018
ORF3a275L275FttGttT44AY.470.000124
ORF3a275L275LttGttA44AY.50.000083
ORF3a275L275FttGttT44AY.5.30.00135
ORF3a275L275LTtgCtg44AY.680.001095
ORF3a275L275FttGttT44AY.770.00451
ORF3a275L275FttGttT44AY.9.20.000147
ORF3a275L275FttGttT44B.1.1.500.002716
ORF3a275L275FttGttT44B.1.6340.013699
ORF3a275L275FttGttT24P.1.140.000096
ORF3a275L275FttGttC24P.1.140.000096
ORF3a275L275FttGttT44Q.80.00066
ORF3a275L275FttGttT33AY.1080.003308
ORF3a275L275LttGttA33AY.1140.000693
ORF3a275L275FttGttT33AY.1200.000112
ORF3a275L275FttGttT33AY.16.10.00141
ORF3a275L275StTgtCg33AY.200.000117
ORF3a275L275LttGttA33AY.250.000018
ORF3a275L275VTtgGtg33AY.290.000047
ORF3a275L275LTtgCtg33AY.29.10.000662
ORF3a275L275FttGttT33AY.330.0002
ORF3a275L275LttGttA33AY.39.10.000119
ORF3a275L275del1ttGtt-33AY.40.000005
ORF3a275L275FttGttT33AY.4.2.10.000447
ORF3a275L275FttGttT33AY.540.000286
ORF3a275L275StTgtCg33AY.60.000123
ORF3a275L275FttGttT33AY.90.000203
ORF3a275L275FttGttT33AY.99.20.000276
ORF3a275L275XtTgtAg33B.1.1.70.000003
ORF3a275L275LttGttA33B.1.1.80.010753
ORF3a275L275LttGttA33B.1.2230.008333
ORF3a275L275LTtgCtg33B.1.2430.000209
ORF3a275L275FttGttT33B.1.36.220.003623
ORF3a275L275FttGttT33B.1.36.290.001552
ORF3a275L275FttGttT33B.1.36.80.003
ORF3a275L275FttGttT33B.1.4080.01107
ORF3a275L275FttGttT33B.1.4530.009709
ORF3a275L275FttGttT33B.1.466.20.001174
ORF3a275L275LttGttA33B.1.466.20.001174
ORF3a275L275FttGttT33B.1.5250.000339
ORF3a275L275FttGttT33B.1.5580.013699
ORF3a275L275FttGttT33B.1.6200.002838
ORF3a275L275FttGttT33B.1.6210.000266
ORF3a275L275FttGttT33B.1.621.10.001517
ORF3a275L275FttGttT33B.1.9.50.017045
ORF3a275L275del1ttGtt-220.111111
ORF3a275L275MTtgAtg22All0
ORF3a275L275FttGttT22AY.1040.003968
ORF3a275L275LTtgCtg22AY.1070.000932
ORF3a275L275LttGttA22AY.110.002677
ORF3a275L275LttGttA22AY.360.000296
ORF3a275L275LttGttA22AY.4.20.000043
ORF3a275L275FttGttC22AY.410.000588
ORF3a275L275FttGttT22AY.710.00095
ORF3a275L275XtTgtAg22AY.750.000112
ORF3a275L275LttGttA22AY.9.20.000073
ORF3a275L275FttGttT22AY.910.001461
ORF3a275L275FttGttT22B.1.1.1530.002191
ORF3a275L275FttGttT22B.1.1.2740.010101
ORF3a275L275LttGttA22B.1.1.3850.008929
ORF3a275L275FttGttT22B.1.1.390.001019
ORF3a275L275FttGttT22B.1.1.4160.00181
ORF3a275L275delTTG---22B.1.1.70.000002
ORF3a275L275StTgtCg22B.1.1770.000026
ORF3a275L275LTtgCtg12B.1.177.210.000076
ORF3a275L275LttGttA12B.1.177.210.000076
ORF3a275L275LttGttA22B.1.177.770.001452
ORF3a275L275StTgtCg22B.1.20.000018
ORF3a275L275FttGttT22B.1.258.170.000208
ORF3a275L275FttGttT22B.1.36.100.009569
ORF3a275L275LttGttA22B.1.36.360.001204
ORF3a275L275LTtgCtg22B.1.3980.005952
ORF3a275L275del1ttGtt-22B.1.4340.105263
ORF3a275L275FttGttT22B.1.4560.006536
ORF3a275L275FttGttT22B.1.5560.015038
ORF3a275L275StTgtCg22B.1.5820.000981
ORF3a275L275StTgtCg22B.1.5960.000174
ORF3a275L275FttGttT22B.1.617.10.000258
ORF3a275L275StTgtCg22P.1.150.000465
ORF3a275L275FttGttT22R.10.00018
ORF3a275L275FttGttT110.055556
ORF3a275L275FttGttT11A0.000387
ORF3a275L275FttGttT11A.2.50.000499
ORF3a275L275FttGttT11AY.10.000396
ORF3a275L275FttGttT11AY.100.00053
ORF3a275L275LttGttA11AY.1000.000046
ORF3a275L275StTgtCg11AY.1020.000027
ORF3a275L275WtTgtGg11AY.1030.000006
ORF3a275L275StTgtCg11AY.1030.000006
ORF3a275L275del2tTGt--11AY.1030.000006
ORF3a275L275FttGttT11AY.1050.000643
ORF3a275L275delTTG---11AY.1180.000063
ORF3a275L275LttGttA11AY.1190.000035
ORF3a275L275FttGttT11AY.120.000316
ORF3a275L275StTgtCg11AY.120.20.001285
ORF3a275L275FttGttT11AY.120.20.001285
ORF3a275L275FttGttT11AY.120.2.10.000498
ORF3a275L275FttGttT11AY.130.000161
ORF3a275L275LttGttA11AY.130.000161
ORF3a275L275FttGttT11AY.140.000088
ORF3a275L275XtTgtAg11AY.140.000088
ORF3a275L275StTgtCg11AY.20.000356
ORF3a275L275LttGttA11AY.200.000039
ORF3a275L275VTtgGtg11AY.250.000006
ORF3a275L275StTgtCg11AY.250.000006
ORF3a275L275VTtgGtg11AY.260.000028
ORF3a275L275LttGttA11AY.270.000065
ORF3a275L275StTgtCg11AY.290.000016
ORF3a275L275del2tTGt--11AY.3.10.000085
ORF3a275L275FttGttT11AY.300.000396
ORF3a275L275FttGttT11AY.310.018519
ORF3a275L275MTtgAtg11AY.40.000002
ORF3a275L275FttGttT11AY.4.40.000409
ORF3a275L275FttGttT11AY.4.50.000107
ORF3a275L275LttGttA11AY.420.00004
ORF3a275L275delTTG---11AY.430.000004
ORF3a275L275del2tTGt--11AY.440.000006
ORF3a275L275LTtgCtg11AY.470.000031
ORF3a275L275FttGttT11AY.480.000465
ORF3a275L275del2tTGt--11AY.5.40.000277
ORF3a275L275FttGttT11AY.5.40.000277
ORF3a275L275FttGttT11AY.500.000799
ORF3a275L275FttGttT11AY.570.000656
ORF3a275L275FttGttT11AY.580.000907
ORF3a275L275LttGttA11AY.60.000041
ORF3a275L275LttGttA11AY.610.000105
ORF3a275L275FttGttT11AY.620.000436
ORF3a275L275FttGttT11AY.650.000533
ORF3a275L275FttGttT11AY.670.000464
ORF3a275L275StTgtCg11AY.670.000464
ORF3a275L275delTTG---11AY.680.000274
ORF3a275L275LttGttA11AY.690.000187
ORF3a275L275FttGttT11AY.7.20.000559
ORF3a275L275LttGttA11AY.700.000209
ORF3a275L275delTTG---11AY.750.000056
ORF3a275L275LttGttA11AY.75.10.00018
ORF3a275L275FttGttT11AY.80.000606
ORF3a275L275FttGttT11AY.820.001357
ORF3a275L275LttGttA11AY.860.00083
ORF3a275L275FttGttT11AY.940.000443
ORF3a275L275FttGttT11AY.980.000079
ORF3a275L275VTtgGtg11B.10.000009
ORF3a275L275LttGttA11B.1.10.000018
ORF3a275L275StTgtCg11B.1.10.000018
ORF3a275L275LttGttA11B.1.1.1290.009174
ORF3a275L275FttGttT11B.1.1.1890.001513
ORF3a275L275FttGttT11B.1.1.2200.001859
ORF3a275L275FttGttT11B.1.1.2220.000204
ORF3a275L275FttGttT11B.1.1.250.000569
ORF3a275L275LttGttA11B.1.1.250.000569
ORF3a275L275FttGttT11B.1.1.280.000311
ORF3a275L275FttGttT11B.1.1.2840.000107
ORF3a275L275FttGttT11B.1.1.3170.000412
ORF3a275L275FttGttT11B.1.1.3230.014085
ORF3a275L275XtTgtAg11B.1.1.3290.003846
ORF3a275L275FttGttT11B.1.1.330.000421
ORF3a275L275FttGttT11B.1.1.3540.004386
ORF3a275L275FttGttT11B.1.1.4020.011111
ORF3a275L275FttGttT11B.1.1.4090.002833
ORF3a275L275LttGttA11B.1.1.5190.00004
ORF3a275L275FttGttT11B.1.1.520.012195
ORF3a275L275StTgtCg11B.1.1.5210.005348
ORF3a275L275FttGttT11B.1.1.830.00271
ORF3a275L275FttGttT11B.1.1340.005464
ORF3a275L275del2tTGt--11B.1.1770.000013
ORF3a275L275FttGttT11B.1.177.180.00116
ORF3a275L275LTtgCtg11B.1.177.450.000381
ORF3a275L275FttGttT11B.1.177.560.000668
ORF3a275L275FttGttT11B.1.177.600.000218
ORF3a275L275FttGttT11B.1.177.810.000189
ORF3a275L275LttGttA11B.1.177.810.000189
ORF3a275L275del1ttGtt-11B.1.20.000009
ORF3a275L275FttGttT11B.1.2130.014925
ORF3a275L275StTgtCg11B.1.2210.000071
ORF3a275L275FttGttT11B.1.2340.000132
ORF3a275L275FttGttT11B.1.2390.001221
ORF3a275L275FttGttC11B.1.3110.000275
ORF3a275L275FttGttT11B.1.3490.000715
ORF3a275L275StTgtCg11B.1.36.170.000494
ORF3a275L275FttGttT11B.1.3980.002976
ORF3a275L275FttGttT11B.1.4000.000429
ORF3a275L275FttGttT11B.1.4260.001009
ORF3a275L275LttGttA11B.1.4340.052632
ORF3a275L275FttGttT11B.1.4680.005714
ORF3a275L275FttGttT11B.1.4990.00105
ORF3a275L275FttGttT11B.1.5230.002451
ORF3a275L275MTtgAtg11B.1.5380.008065
ORF3a275L275FttGttC11B.1.5550.022222
ORF3a275L275StTgtCg11B.1.5640.000426
ORF3a275L275FttGttT11B.1.5640.000426
ORF3a275L275FttGttC11B.1.5690.014493
ORF3a275L275FttGttT11B.1.5950.000261
ORF3a275L275FttGttT11B.1.5990.00365
ORF3a275L275FttGttT11B.1.6020.006536
ORF3a275L275FttGttT11B.1.6250.002353
ORF3a275L275FttGttT11B.1.6370.000073
ORF3a275L275StTgtCg11B.30.000831
ORF3a275L275FttGttT11B.340.013699
ORF3a275L275FttGttT11B.400.000364
ORF3a275L275FttGttT11C.350.000774
ORF3a275L275FttGttT11C.36.30.000567
ORF3a275L275FttGttT11C.36.3.10.002717
ORF3a275L275FttGttT11C.370.000116
ORF3a275L275FttGttT11C.80.004464
ORF3a275L275FttGttT11P.1.100.000269
ORF3a275L275LTtgCtg11P.1.130.000898
ORF3a275L275LttGttA11P.1.140.000048
ORF3a275L275FttGttT11P.1.150.000232
ORF3a275L275StTgtCg11P.1.160.000374
ORF3a275L275FttGttT11P.1.170.000162
ORF3a275L275FttGttT11P.1.70.000319
ORF3a275L275FttGttT11Q.10.000126
ORF3a275L275FttGttT11Q.40.000455

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.