CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 138

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
ORF3a138P138PsynccAccG11762110680.94099625804-25806
ORF3a138P138PsynccAccT117625980.050841725804-25806
ORF3a138P138PsynccAccC11762960.0081618825804-25806
ORF3a138P138deldelCCA---8383125804-25806
ORF3a138P138LnonsyncCacTa33220.66666725804-25806
ORF3a138P138LnonsyncCAcTG33110.33333325804-25806
ORF3a138P138SnonsynCcaTca2121125804-25806
ORF3a138P138TnonsynCcaAca1717125804-25806
ORF3a138P138QnonsyncCacAa13120.92307725804-25806
ORF3a138P138QnonsyncCAcAG1310.076923125804-25806
ORF3a138P138RnonsyncCacGa630.525804-25806
ORF3a138P138RnonsynCCAAGG620.33333325804-25806
ORF3a138P138RnonsyncCAcGT610.16666725804-25806
ORF3a138P138AnonsynCcaGca540.825804-25806
ORF3a138P138AnonsynCcAGcC510.225804-25806
ORF3a138P138del1delccAcc-33125804-25806

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF3a138P138PccAccG1106811762All0.002117
ORF3a138P138PccAccT59811762All0.000114
ORF3a138P138PccAccC9611762All0.000018
ORF3a138P138PccAccG95299535AY.540.908562
ORF3a138P138PccAccT69535AY.540.000572
ORF3a138P138PccAccG10931148B.1.617.20.004116
ORF3a138P138PccAccT531148B.1.617.20.0002
ORF3a138P138PccAccC21148B.1.617.20.000008
ORF3a138P138PccAccT242242AY.50.004997
ORF3a138P138PccAccT112135B.1.1.70.0001
ORF3a138P138PccAccG19135B.1.1.70.000017
ORF3a138P138PccAccC4135B.1.1.70.000004
ORF3a138P138PccAccG101115AY.250.000607
ORF3a138P138PccAccT14115AY.250.000084
ORF3a138P138PccAccG7490AY.40.000115
ORF3a138P138PccAccT1290AY.40.000019
ORF3a138P138PccAccC490AY.40.000006
ORF3a138P138delCCA---8383All0.000016
ORF3a138P138PccAccG3771AY.4.20.000802
ORF3a138P138PccAccT3471AY.4.20.000737
ORF3a138P138PccAccG3238AY.430.000142
ORF3a138P138PccAccT638AY.430.000027
ORF3a138P138LcCacTa2233All0.000004
ORF3a138P138LcCAcTG1133All0.000002
ORF3a138P138PccAccT2233AY.1030.000137
ORF3a138P138PccAccG1033AY.1030.000062
ORF3a138P138PccAccC133AY.1030.000006
ORF3a138P138PccAccT1826B.1.1770.000237
ORF3a138P138PccAccC826B.1.1770.000105
ORF3a138P138PccAccG2123AY.440.000128
ORF3a138P138PccAccT123AY.440.000006
ORF3a138P138PccAccC123AY.440.000006
ORF3a138P138SCcaTca2121All0.000004
ORF3a138P138delCCA---2020B.1.1.70.000018
ORF3a138P138PccAccC2020B.1.2210.001421
ORF3a138P138TCcaAca1717All0.000003
ORF3a138P138PccAccG1616AY.620.006972
ORF3a138P138QcCacAa1213All0.000002
ORF3a138P138QcCAcAG113All0
ORF3a138P138PccAccT1213AY.1020.000318
ORF3a138P138PccAccG113AY.1020.000027
ORF3a138P138PccAccT513B.1.20.000044
ORF3a138P138PccAccC413B.1.20.000035
ORF3a138P138PccAccG413B.1.20.000035
ORF3a138P138PccAccG1012B.10.000092
ORF3a138P138PccAccT212B.10.000018
ORF3a138P138LcCAcTG1111AY.540.001049
ORF3a138P138PccAccC711B.1.10.000127
ORF3a138P138PccAccT411B.1.10.000073
ORF3a138P138PccAccG1010AY.7.10.001127
ORF3a138P138PccAccG99AY.160.003417
ORF3a138P138delCCA---88B.10.000073
ORF3a138P138RcCacGa36All0.000001
ORF3a138P138RCCAAGG26All0
ORF3a138P138RcCAcGT16All0
ORF3a138P138PccAccT36AY.1180.000188
ORF3a138P138PccAccG36AY.1180.000188
ORF3a138P138delCCA---66AY.430.000027
ORF3a138P138PccAccT56AY.5.40.001384
ORF3a138P138PccAccG16AY.5.40.000277
ORF3a138P138PccAccG66AY.750.000336
ORF3a138P138PccAccC66B.1.177.320.008097
ORF3a138P138ACcaGca45All0.000001
ORF3a138P138ACcAGcC15All0
ORF3a138P138PccAccG55AY.1100.000563
ORF3a138P138PccAccG55AY.60.000206
ORF3a138P138PccAccG55AY.610.000524
ORF3a138P138PccAccG45B.1.3510.000119
ORF3a138P138PccAccT15B.1.3510.00003
ORF3a138P138PccAccC35B.1.360.000438
ORF3a138P138PccAccG15B.1.360.000146
ORF3a138P138PccAccT15B.1.360.000146
ORF3a138P138PccAccT45C.360.003643
ORF3a138P138PccAccC15C.360.000911
ORF3a138P138PccAccG24AY.260.000057
ORF3a138P138PccAccT14AY.260.000028
ORF3a138P138PccAccC14AY.260.000028
ORF3a138P138PccAccT44AY.34.10.00204
ORF3a138P138delCCA---44AY.40.000006
ORF3a138P138PccAccG44AY.470.000124
ORF3a138P138delCCA---44B.1.1770.000053
ORF3a138P138PccAccC44B.1.177.720.013559
ORF3a138P138PccAccG44P.1.150.000929
ORF3a138P138PccAccT44Q.10.000505
ORF3a138P138del1ccAcc-33All0.000001
ORF3a138P138PccAccG33AY.1000.000138
ORF3a138P138PccAccG23AY.200.000078
ORF3a138P138PccAccT13AY.200.000039
ORF3a138P138PccAccT23AY.290.000032
ORF3a138P138PccAccG13AY.290.000016
ORF3a138P138PccAccT23AY.390.000049
ORF3a138P138PccAccG13AY.390.000025
ORF3a138P138SCcaTca33AY.440.000018
ORF3a138P138PccAccG33AY.520.002443
ORF3a138P138PccAccC33AY.720.004082
ORF3a138P138PccAccG33B.1.1.2160.002671
ORF3a138P138PccAccT33B.1.1.3120.005736
ORF3a138P138LcCacTa33B.1.1.70.000003
ORF3a138P138PccAccC33B.1.177.520.005272
ORF3a138P138PccAccC33B.1.177.620.003576
ORF3a138P138PccAccC33B.1.3670.002377
ORF3a138P138PccAccC23B.1.4290.000047
ORF3a138P138PccAccG13B.1.4290.000024
ORF3a138P138PccAccG33B.1.617.10.000387
ORF3a138P138LcCacTa33B.1.617.20.000011
ORF3a138P138delCCA---33B.1.617.20.000011
ORF3a138P138delCCA---220.111111
ORF3a138P138RCCAAGG220.111111
ORF3a138P138PccAccC12AY.30.00001
ORF3a138P138PccAccG12AY.30.00001
ORF3a138P138PccAccG22AY.330.000134
ORF3a138P138SCcaTca22AY.40.000003
ORF3a138P138delCCA---22AY.4.50.000215
ORF3a138P138QcCAcAG12AY.430.000004
ORF3a138P138QcCacAa12AY.430.000004
ORF3a138P138PccAccG22AY.46.60.000144
ORF3a138P138PccAccG22AY.980.000158
ORF3a138P138TCcaAca22B0.000256
ORF3a138P138PccAccG22B0.000256
ORF3a138P138TCcaAca22B.10.000018
ORF3a138P138QcCacAa22B.10.000018
ORF3a138P138RcCacGa22B.10.000018
ORF3a138P138ACcaGca12B.10.000009
ORF3a138P138ACcAGcC12B.10.000009
ORF3a138P138delCCA---22B.1.1.3150.016949
ORF3a138P138SCcaTca22B.1.1.70.000002
ORF3a138P138PccAccC22B.1.1600.000062
ORF3a138P138ACcaGca22B.1.1770.000026
ORF3a138P138PccAccC22B.1.177.750.002081
ORF3a138P138PccAccC22B.1.177.850.01087
ORF3a138P138LcCacTa22B.1.177.860.000367
ORF3a138P138QcCacAa22B.1.20.000018
ORF3a138P138PccAccG22B.1.2430.000139
ORF3a138P138PccAccC22B.1.2580.000133
ORF3a138P138PccAccG12B.1.258.170.000104
ORF3a138P138PccAccC12B.1.258.170.000104
ORF3a138P138delCCA---22B.1.5250.000226
ORF3a138P138delCCA---22B.1.6210.000177
ORF3a138P138PccAccT12C.370.000116
ORF3a138P138PccAccG12C.370.000116
ORF3a138P138delCCA---22P.10.000032
ORF3a138P138PccAccG22P.10.000032
ORF3a138P138PccAccG22P.1.140.000096
ORF3a138P138delCCA---22P.1.150.000465
ORF3a138P138PccAccT110.055556
ORF3a138P138LcCacTa11A0.000387
ORF3a138P138delCCA---11A0.000387
ORF3a138P138PccAccT11A.10.000282
ORF3a138P138PccAccT11A.20.000662
ORF3a138P138QcCacAa11A.2.20.001689
ORF3a138P138delCCA---11AD.20.000219
ORF3a138P138PccAccG11AD.20.000219
ORF3a138P138PccAccG11AM.10.111111
ORF3a138P138PccAccG11AY.100.00053
ORF3a138P138SCcaTca11AY.100.00053
ORF3a138P138QcCacAa11AY.1030.000006
ORF3a138P138PccAccG11AY.1060.000335
ORF3a138P138PccAccT11AY.1110.000183
ORF3a138P138PccAccT11AY.1140.000231
ORF3a138P138SCcaTca11AY.1180.000063
ORF3a138P138PccAccG11AY.1190.000035
ORF3a138P138LcCacTa11AY.1200.000037
ORF3a138P138PccAccG11AY.130.000161
ORF3a138P138PccAccT11AY.140.000088
ORF3a138P138PccAccG11AY.16.10.00047
ORF3a138P138PccAccG11AY.190.00114
ORF3a138P138PccAccG11AY.230.00007
ORF3a138P138LcCacTa11AY.23.10.000417
ORF3a138P138delCCA---11AY.250.000006
ORF3a138P138TCcaAca11AY.250.000006
ORF3a138P138delCCA---11AY.290.000016
ORF3a138P138LcCacTa11AY.30.00001
ORF3a138P138QcCacAa11AY.330.000067
ORF3a138P138PccAccG11AY.340.000097
ORF3a138P138PccAccG11AY.370.000316
ORF3a138P138PccAccG11AY.380.000499
ORF3a138P138LcCacTa11AY.390.000025
ORF3a138P138delCCA---11AY.390.000025
ORF3a138P138del1ccAcc-11AY.40.000002
ORF3a138P138PccAccG11AY.400.000964
ORF3a138P138SCcaTca11AY.420.00004
ORF3a138P138TCcaAca11AY.430.000004
ORF3a138P138PccAccT11AY.460.000104
ORF3a138P138PccAccG11AY.46.50.000198
ORF3a138P138TCcaAca11AY.50.000021
ORF3a138P138LcCacTa11AY.50.000021
ORF3a138P138delCCA---11AY.5.30.000337
ORF3a138P138PccAccT11AY.5.30.000337
ORF3a138P138PccAccG11AY.510.000909
ORF3a138P138PccAccG11AY.530.000288
ORF3a138P138delCCA---11AY.60.000041
ORF3a138P138PccAccG11AY.650.000533
ORF3a138P138delCCA---11AY.680.000274
ORF3a138P138PccAccT11AY.740.000116
ORF3a138P138PccAccG11AY.75.10.00018
ORF3a138P138PccAccG11AY.80.000606
ORF3a138P138PccAccG11AY.850.000427
ORF3a138P138PccAccG11AY.860.00083
ORF3a138P138PccAccT11AY.90.000068
ORF3a138P138TCcaAca11AY.9.20.000037
ORF3a138P138PccAccG11AY.9.20.000037
ORF3a138P138SCcaTca11AY.9.20.000037
ORF3a138P138PccAccG11AY.930.000273
ORF3a138P138QcCacAa11B0.000128
ORF3a138P138SCcaTca11B0.000128
ORF3a138P138delCCA---11B0.000128
ORF3a138P138LcCacTa11B.10.000009
ORF3a138P138SCcaTca11B.10.000009
ORF3a138P138delCCA---11B.1.10.000018
ORF3a138P138SCcaTca11B.1.10.000018
ORF3a138P138del1ccAcc-11B.1.1.1370.0125
ORF3a138P138PccAccC11B.1.1.1980.001468
ORF3a138P138PccAccG11B.1.1.250.000569
ORF3a138P138PccAccG11B.1.1.2740.005051
ORF3a138P138LcCacTa11B.1.1.2980.000862
ORF3a138P138PccAccT11B.1.1.3890.006061
ORF3a138P138PccAccT11B.1.1.4090.002833
ORF3a138P138delCCA---11B.1.1.4090.002833
ORF3a138P138delCCA---11B.1.1.4200.001006
ORF3a138P138PccAccT11B.1.1.4340.000349
ORF3a138P138PccAccG11B.1.1.5190.00004
ORF3a138P138ACcaGca11B.1.1.70.000001
ORF3a138P138TCcaAca11B.1.1.70.000001
ORF3a138P138del1ccAcc-11B.1.1.70.000001
ORF3a138P138TCcaAca11B.1.1.700.000341
ORF3a138P138PccAccT11B.1.1.890.006061
ORF3a138P138delCCA---11B.1.1400.018868
ORF3a138P138delCCA---11B.1.1600.000031
ORF3a138P138RcCacGa11B.1.160.110.005714
ORF3a138P138PccAccC11B.1.160.160.000929
ORF3a138P138TCcaAca11B.1.160.160.000929
ORF3a138P138delCCA---11B.1.160.230.004831
ORF3a138P138TCcaAca11B.1.160.300.002976
ORF3a138P138LcCacTa11B.1.1770.000013
ORF3a138P138TCcaAca11B.1.177.440.000519
ORF3a138P138delCCA---11B.1.177.510.004566
ORF3a138P138PccAccC11B.1.177.530.002392
ORF3a138P138LcCacTa11B.1.177.600.000218
ORF3a138P138delCCA---11B.1.177.620.001192
ORF3a138P138LcCacTa11B.1.20.000009
ORF3a138P138delCCA---11B.1.2210.000071
ORF3a138P138PccAccT11B.1.2340.000132
ORF3a138P138TCcaAca11B.1.2350.002519
ORF3a138P138PccAccT11B.1.2360.002053
ORF3a138P138SCcaTca11B.1.360.000146
ORF3a138P138SCcaTca11B.1.36.120.009615
ORF3a138P138SCcaTca11B.1.36.190.009259
ORF3a138P138PccAccC11B.1.3960.000706
ORF3a138P138delCCA---11B.1.416.10.001563
ORF3a138P138PccAccT11B.1.4270.00005
ORF3a138P138QcCacAa11B.1.4270.00005
ORF3a138P138PccAccT11B.1.4560.003268
ORF3a138P138PccAccT11B.1.5170.000427
ORF3a138P138SCcaTca11B.1.5250.000113
ORF3a138P138SCcaTca11B.1.5260.000024
ORF3a138P138PccAccT11B.1.5260.000024
ORF3a138P138LcCacTa11B.1.5640.000426
ORF3a138P138SCcaTca11B.1.5710.009709
ORF3a138P138LcCacTa11B.1.5760.000907
ORF3a138P138SCcaTca11B.1.5800.004065
ORF3a138P138RcCAcGT11B.1.5820.000491
ORF3a138P138PccAccT11B.1.5910.010638
ORF3a138P138TCcaAca11B.1.5960.000087
ORF3a138P138delCCA---11B.1.5960.000087
ORF3a138P138delCCA---11B.1.617.10.000129
ORF3a138P138TCcaAca11B.1.617.20.000004
ORF3a138P138QcCacAa11B.1.617.20.000004
ORF3a138P138PccAccC11B.1.6200.000946
ORF3a138P138PccAccT11B.1.6210.000089
ORF3a138P138LcCacTa11B.1.6270.00202
ORF3a138P138delCCA---11B.1.6380.052632
ORF3a138P138QcCacAa11B.1.80.001972
ORF3a138P138PccAccG11B.200.023256
ORF3a138P138PccAccT11P.1.10.000318
ORF3a138P138PccAccG11P.20.000187
ORF3a138P138PccAccC11Q.20.000613
ORF3a138P138delCCA---11Q.40.000455
ORF3a138P138TCcaAca11R.10.00009
ORF3a138P138delCCA---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.