CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 503

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/nsp3503P503SP1321SnonsynCcaTca1889188914226-4228
ORF1ab/nsp3503P503PP1321PsynccAccG6834080.5973654226-4228
ORF1ab/nsp3503P503PP1321PsynccAccT6832560.3748174226-4228
ORF1ab/nsp3503P503PP1321PsynccAccC683190.02781844226-4228
ORF1ab/nsp3503P503TP1321TnonsynCcaAca93910.9784954226-4228
ORF1ab/nsp3503P503TP1321TnonsynCcAAcT9310.01075274226-4228
ORF1ab/nsp3503P503TP1321TnonsynCcAAcG9310.01075274226-4228
ORF1ab/nsp3503P503QP1321QnonsyncCacAa353514226-4228
ORF1ab/nsp3503P503LP1321LnonsyncCacTa30280.9333334226-4228
ORF1ab/nsp3503P503LP1321LnonsyncCAcTT3010.03333334226-4228
ORF1ab/nsp3503P503LP1321LnonsyncCAcTG3010.03333334226-4228
ORF1ab/nsp3503P503delP1321deldelCCA---181814226-4228
ORF1ab/nsp3503P503AP1321AnonsynCcaGca630.54226-4228
ORF1ab/nsp3503P503RP1321RnonsyncCacGa630.54226-4228
ORF1ab/nsp3503P503RP1321RnonsynCCaAGa620.3333334226-4228
ORF1ab/nsp3503P503AP1321AnonsynCcAGcT620.3333334226-4228
ORF1ab/nsp3503P503AP1321AnonsynCcAGcC610.1666674226-4228
ORF1ab/nsp3503P503RP1321RnonsyncCAcGC610.1666674226-4228
ORF1ab/nsp3503P503XP1321XnonsynCCaTGa320.6666674226-4228
ORF1ab/nsp3503P503XP1321XnonsynCCaTAa310.3333334226-4228
ORF1ab/nsp3503P503MP1321MnonsynCCAATG2214226-4228
ORF1ab/nsp3503P503del1P1321del1delCCa-Ya2214226-4228
ORF1ab/nsp3503P503IP1321InonsynCCAATT210.54226-4228
ORF1ab/nsp3503P503GP1321GnonsynCCAGGC210.54226-4228
ORF1ab/nsp3503P503IP1321InonsynCCaATa210.54226-4228
ORF1ab/nsp3503P503GP1321GnonsynCCaGGa210.54226-4228
ORF1ab/nsp3503P503del2P1321del2delCCa--a210.54226-4228
ORF1ab/nsp3503P503del2P1321del2delCCAT--210.54226-4228
ORF1ab/nsp3503P503KP1321KnonsynCCaAAa1114226-4228

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/nsp3503P503SCcaTca18891889All0.000361
ORF1ab/nsp3503P503SCcaTca11531153B.1.1390.845308
ORF1ab/nsp3503P503PccAccG408683All0.000078
ORF1ab/nsp3503P503PccAccT256683All0.000049
ORF1ab/nsp3503P503PccAccC19683All0.000004
ORF1ab/nsp3503P503PccAccG144149AY.40.000224
ORF1ab/nsp3503P503PccAccT4149AY.40.000006
ORF1ab/nsp3503P503PccAccC1149AY.40.000002
ORF1ab/nsp3503P503PccAccT120120B.1.1.2140.006655
ORF1ab/nsp3503P503TCcaAca9193All0.000017
ORF1ab/nsp3503P503TCcAAcG193All0
ORF1ab/nsp3503P503TCcAAcT193All0
ORF1ab/nsp3503P503SCcaTca9090B.1.2430.006263
ORF1ab/nsp3503P503PccAccG6569B.1.20.000572
ORF1ab/nsp3503P503PccAccT469B.1.20.000035
ORF1ab/nsp3503P503SCcaTca6868B.1.1.70.000061
ORF1ab/nsp3503P503PccAccG5663B.1.1.70.00005
ORF1ab/nsp3503P503PccAccT763B.1.1.70.000006
ORF1ab/nsp3503P503TCcaAca5858B.1.1.70.000052
ORF1ab/nsp3503P503SCcaTca5555B.1.617.20.000207
ORF1ab/nsp3503P503PccAccG5253AY.430.00023
ORF1ab/nsp3503P503PccAccT153AY.430.000004
ORF1ab/nsp3503P503SCcaTca4848AY.40.000075
ORF1ab/nsp3503P503SCcaTca4646AY.1030.000286
ORF1ab/nsp3503P503QcCacAa3535All0.000007
ORF1ab/nsp3503P503PccAccT2032B.1.10.000363
ORF1ab/nsp3503P503PccAccG1032B.1.10.000181
ORF1ab/nsp3503P503PccAccC232B.1.10.000036
ORF1ab/nsp3503P503LcCacTa2830All0.000005
ORF1ab/nsp3503P503LcCAcTT130All0
ORF1ab/nsp3503P503LcCAcTG130All0
ORF1ab/nsp3503P503SCcaTca2929AY.430.000128
ORF1ab/nsp3503P503SCcaTca2828B.1.20.000247
ORF1ab/nsp3503P503PccAccT2424B.1.6210.002124
ORF1ab/nsp3503P503SCcaTca2323B.10.000211
ORF1ab/nsp3503P503PccAccG2222B.1.1.3450.956522
ORF1ab/nsp3503P503TCcaAca2020AY.40.000031
ORF1ab/nsp3503P503SCcaTca2020AY.950.015221
ORF1ab/nsp3503P503SCcaTca2020B.1.1.500.013578
ORF1ab/nsp3503P503SCcaTca1919B.1.1770.00025
ORF1ab/nsp3503P503delCCA---1818All0.000003
ORF1ab/nsp3503P503SCcaTca1616B.1.2980.033827
ORF1ab/nsp3503P503PccAccT1515AY.60.000617
ORF1ab/nsp3503P503PccAccG914AY.330.000601
ORF1ab/nsp3503P503PccAccT514AY.330.000334
ORF1ab/nsp3503P503SCcaTca1313AY.30.000129
ORF1ab/nsp3503P503SCcaTca1313AY.90.000879
ORF1ab/nsp3503P503SCcaTca1313B.1.5250.001471
ORF1ab/nsp3503P503SCcaTca1212AY.250.000072
ORF1ab/nsp3503P503PccAccG1212AY.30.000119
ORF1ab/nsp3503P503SCcaTca1212B.1.5960.001046
ORF1ab/nsp3503P503SCcaTca1111AY.1010.005395
ORF1ab/nsp3503P503PccAccT711B.1.617.20.000026
ORF1ab/nsp3503P503PccAccG311B.1.617.20.000011
ORF1ab/nsp3503P503PccAccC111B.1.617.20.000004
ORF1ab/nsp3503P503SCcaTca1010AY.440.000061
ORF1ab/nsp3503P503SCcaTca99AY.200.00035
ORF1ab/nsp3503P503SCcaTca99B.1.5260.000212
ORF1ab/nsp3503P503SCcaTca99P.20.00168
ORF1ab/nsp3503P503SCcaTca88B.1.10.000145
ORF1ab/nsp3503P503QcCacAa88B.1.1.70.000007
ORF1ab/nsp3503P503LcCacTa88B.1.1.70.000007
ORF1ab/nsp3503P503SCcaTca88B.1.2210.000568
ORF1ab/nsp3503P503SCcaTca88P.10.000126
ORF1ab/nsp3503P503SCcaTca77P.1.170.001132
ORF1ab/nsp3503P503QcCacAa77R.10.00063
ORF1ab/nsp3503P503RcCacGa360.166667
ORF1ab/nsp3503P503RCCaAGa260.111111
ORF1ab/nsp3503P503RcCAcGC160.055556
ORF1ab/nsp3503P503RcCacGa36All0.000001
ORF1ab/nsp3503P503ACcaGca36All0.000001
ORF1ab/nsp3503P503ACcAGcT26All0
ORF1ab/nsp3503P503RCCaAGa26All0
ORF1ab/nsp3503P503ACcAGcC16All0
ORF1ab/nsp3503P503RcCAcGC16All0
ORF1ab/nsp3503P503SCcaTca66AY.290.000095
ORF1ab/nsp3503P503LcCacTa66AY.40.000009
ORF1ab/nsp3503P503PccAccG66AY.420.000241
ORF1ab/nsp3503P503PccAccT66AY.590.003178
ORF1ab/nsp3503P503QcCacAa66B.1.177.690.008902
ORF1ab/nsp3503P503PccAccT66B.1.3510.000178
ORF1ab/nsp3503P503PccAccG36B.1.4290.000071
ORF1ab/nsp3503P503PccAccT26B.1.4290.000047
ORF1ab/nsp3503P503PccAccC16B.1.4290.000024
ORF1ab/nsp3503P503PccAccT350.166667
ORF1ab/nsp3503P503PccAccG150.055556
ORF1ab/nsp3503P503PccAccC150.055556
ORF1ab/nsp3503P503SCcaTca55AY.1020.000133
ORF1ab/nsp3503P503PccAccT45AY.1020.000106
ORF1ab/nsp3503P503PccAccC15AY.1020.000027
ORF1ab/nsp3503P503PccAccT35AY.1030.000019
ORF1ab/nsp3503P503PccAccC15AY.1030.000006
ORF1ab/nsp3503P503PccAccG15AY.1030.000006
ORF1ab/nsp3503P503PccAccT35AY.250.000018
ORF1ab/nsp3503P503PccAccG25AY.250.000012
ORF1ab/nsp3503P503SCcaTca55AY.390.000124
ORF1ab/nsp3503P503PccAccC45AY.440.000024
ORF1ab/nsp3503P503PccAccG15AY.440.000006
ORF1ab/nsp3503P503SCcaTca55AY.46.40.000823
ORF1ab/nsp3503P503PccAccG35B.10.000027
ORF1ab/nsp3503P503PccAccT25B.10.000018
ORF1ab/nsp3503P503SCcaTca55B.1.1.5190.000199
ORF1ab/nsp3503P503PccAccG55B.1.2430.000348
ORF1ab/nsp3503P503SCcaTca55B.1.4290.000118
ORF1ab/nsp3503P503ACcAGcT240.111111
ORF1ab/nsp3503P503ACcaGca140.055556
ORF1ab/nsp3503P503ACcAGcC140.055556
ORF1ab/nsp3503P503SCcaTca44AY.1000.000184
ORF1ab/nsp3503P503SCcaTca44AY.1130.00057
ORF1ab/nsp3503P503SCcaTca44AY.260.000113
ORF1ab/nsp3503P503LcCAcTT130.055556
ORF1ab/nsp3503P503TCcaAca130.055556
ORF1ab/nsp3503P503LcCacTa130.055556
ORF1ab/nsp3503P503TCcAAcT130.055556
ORF1ab/nsp3503P503TCcAAcG130.055556
ORF1ab/nsp3503P503LcCAcTG130.055556
ORF1ab/nsp3503P503XCCaTGa23All0
ORF1ab/nsp3503P503XCCaTAa13All0
ORF1ab/nsp3503P503PccAccT23AY.1000.000092
ORF1ab/nsp3503P503PccAccC13AY.1000.000046
ORF1ab/nsp3503P503SCcaTca33AY.4.20.000065
ORF1ab/nsp3503P503delCCA---33AY.430.000013
ORF1ab/nsp3503P503PccAccG23AY.450.000243
ORF1ab/nsp3503P503PccAccT13AY.450.000122
ORF1ab/nsp3503P503SCcaTca33AY.470.000093
ORF1ab/nsp3503P503PccAccG23AY.980.000158
ORF1ab/nsp3503P503PccAccT13AY.980.000079
ORF1ab/nsp3503P503SCcaTca33B.1.1.2040.009119
ORF1ab/nsp3503P503PccAccT33B.1.1.2220.000612
ORF1ab/nsp3503P503delCCA---33B.1.1.70.000003
ORF1ab/nsp3503P503SCcaTca33B.1.5650.002431
ORF1ab/nsp3503P503SCcaTca33P.1.60.005837
ORF1ab/nsp3503P503SCcaTca33Q.10.000379
ORF1ab/nsp3503P503XCCaTGa220.111111
ORF1ab/nsp3503P503del1CCa-Ya220.111111
ORF1ab/nsp3503P503ICCAATT120.055556
ORF1ab/nsp3503P503GCCaGGa120.055556
ORF1ab/nsp3503P503GCCAGGC120.055556
ORF1ab/nsp3503P503ICCaATa120.055556
ORF1ab/nsp3503P503del1CCa-Ya22All0
ORF1ab/nsp3503P503MCCAATG22All0
ORF1ab/nsp3503P503GCCaGGa12All0
ORF1ab/nsp3503P503del2CCAT--12All0
ORF1ab/nsp3503P503del2CCa--a12All0
ORF1ab/nsp3503P503ICCAATT12All0
ORF1ab/nsp3503P503ICCaATa12All0
ORF1ab/nsp3503P503GCCAGGC12All0
ORF1ab/nsp3503P503SCcaTca22AY.1160.000574
ORF1ab/nsp3503P503SCcaTca22AY.230.000139
ORF1ab/nsp3503P503SCcaTca22AY.270.000129
ORF1ab/nsp3503P503SCcaTca22AY.420.00008
ORF1ab/nsp3503P503SCcaTca22AY.50.000041
ORF1ab/nsp3503P503SCcaTca22AY.5.20.004926
ORF1ab/nsp3503P503QcCacAa22AY.60.000082
ORF1ab/nsp3503P503LcCacTa22AY.60.000082
ORF1ab/nsp3503P503SCcaTca22AY.750.000112
ORF1ab/nsp3503P503PccAccT22AY.790.002421
ORF1ab/nsp3503P503PccAccT22AY.9.20.000073
ORF1ab/nsp3503P503SCcaTca22AY.99.20.000184
ORF1ab/nsp3503P503LcCacTa22B.10.000018
ORF1ab/nsp3503P503SCcaTca22B.1.1.2840.000215
ORF1ab/nsp3503P503SCcaTca22B.1.1.830.00542
ORF1ab/nsp3503P503PccAccC12B.1.1770.000013
ORF1ab/nsp3503P503PccAccT12B.1.1770.000013
ORF1ab/nsp3503P503PccAccC22B.1.177.210.000153
ORF1ab/nsp3503P503SCcaTca22B.1.360.000292
ORF1ab/nsp3503P503SCcaTca22B.1.36.220.002415
ORF1ab/nsp3503P503SCcaTca22B.1.564.10.003155
ORF1ab/nsp3503P503TCcaAca22B.1.617.20.000008
ORF1ab/nsp3503P503SCcaTca22P.1.140.000096
ORF1ab/nsp3503P503TCcaAca22P.1.150.000465
ORF1ab/nsp3503P503QcCacAa22P.1.70.000639
ORF1ab/nsp3503P503MCCAATG110.055556
ORF1ab/nsp3503P503SCcaTca11A.23.10.000704
ORF1ab/nsp3503P503TCcaAca11A.50.001923
ORF1ab/nsp3503P503SCcaTca11AD.20.000219
ORF1ab/nsp3503P503KCCaAAa11All0
ORF1ab/nsp3503P503TCcaAca11AY.1000.000046
ORF1ab/nsp3503P503LcCacTa11AY.1020.000027
ORF1ab/nsp3503P503MCCAATG11AY.1030.000006
ORF1ab/nsp3503P503LcCacTa11AY.1030.000006
ORF1ab/nsp3503P503SCcaTca11AY.1140.000231
ORF1ab/nsp3503P503SCcaTca11AY.1180.000063
ORF1ab/nsp3503P503LcCacTa11AY.1190.000035
ORF1ab/nsp3503P503TCcaAca11AY.1200.000037
ORF1ab/nsp3503P503PccAccG11AY.1200.000037
ORF1ab/nsp3503P503SCcaTca11AY.120.10.000321
ORF1ab/nsp3503P503LcCacTa11AY.120.10.000321
ORF1ab/nsp3503P503SCcaTca11AY.140.000088
ORF1ab/nsp3503P503PccAccT11AY.200.000039
ORF1ab/nsp3503P503PccAccG11AY.230.00007
ORF1ab/nsp3503P503SCcaTca11AY.240.000431
ORF1ab/nsp3503P503QcCacAa11AY.250.000006
ORF1ab/nsp3503P503TCcaAca11AY.250.000006
ORF1ab/nsp3503P503QcCacAa11AY.260.000028
ORF1ab/nsp3503P503ACcaGca11AY.30.00001
ORF1ab/nsp3503P503QcCacAa11AY.360.000148
ORF1ab/nsp3503P503LcCacTa11AY.360.000148
ORF1ab/nsp3503P503PccAccG11AY.390.000025
ORF1ab/nsp3503P503QcCacAa11AY.40.000002
ORF1ab/nsp3503P503TCcaAca11AY.4.20.000022
ORF1ab/nsp3503P503delCCA---11AY.4.50.000107
ORF1ab/nsp3503P503TCcaAca11AY.430.000004
ORF1ab/nsp3503P503del2CCAT--11AY.440.000006
ORF1ab/nsp3503P503ACcaGca11AY.440.000006
ORF1ab/nsp3503P503PccAccT11AY.460.000104
ORF1ab/nsp3503P503PccAccT11AY.470.000031
ORF1ab/nsp3503P503PccAccC11AY.50.000021
ORF1ab/nsp3503P503SCcaTca11AY.590.00053
ORF1ab/nsp3503P503SCcaTca11AY.60.000041
ORF1ab/nsp3503P503PccAccT11AY.690.000187
ORF1ab/nsp3503P503PccAccT11AY.750.000056
ORF1ab/nsp3503P503SCcaTca11AY.75.10.00018
ORF1ab/nsp3503P503SCcaTca11AY.780.001541
ORF1ab/nsp3503P503SCcaTca11AY.9.20.000037
ORF1ab/nsp3503P503PccAccG11AY.930.000273
ORF1ab/nsp3503P503TCcaAca11AY.940.000443
ORF1ab/nsp3503P503delCCA---11AY.990.001049
ORF1ab/nsp3503P503SCcaTca11B0.000128
ORF1ab/nsp3503P503KCCaAAa11B.10.000009
ORF1ab/nsp3503P503delCCA---11B.10.000009
ORF1ab/nsp3503P503XCCaTAa11B.1.10.000018
ORF1ab/nsp3503P503QcCacAa11B.1.10.000018
ORF1ab/nsp3503P503TCcaAca11B.1.10.000018
ORF1ab/nsp3503P503PccAccG11B.1.1.10.000327
ORF1ab/nsp3503P503SCcaTca11B.1.1.1350.004695
ORF1ab/nsp3503P503SCcaTca11B.1.1.1700.001247
ORF1ab/nsp3503P503delCCA---11B.1.1.2160.00089
ORF1ab/nsp3503P503LcCacTa11B.1.1.2270.004348
ORF1ab/nsp3503P503SCcaTca11B.1.1.3260.001761
ORF1ab/nsp3503P503PccAccT11B.1.1.3980.003226
ORF1ab/nsp3503P503delCCA---11B.1.1.5190.00004
ORF1ab/nsp3503P503PccAccG11B.1.1.5230.001563
ORF1ab/nsp3503P503QcCacAa11B.1.1110.001175
ORF1ab/nsp3503P503SCcaTca11B.1.1600.000031
ORF1ab/nsp3503P503LcCacTa11B.1.1770.000013
ORF1ab/nsp3503P503SCcaTca11B.1.177.190.001431
ORF1ab/nsp3503P503SCcaTca11B.1.177.240.001295
ORF1ab/nsp3503P503SCcaTca11B.1.177.440.000519
ORF1ab/nsp3503P503PccAccG11B.1.177.540.000606
ORF1ab/nsp3503P503SCcaTca11B.1.177.730.000566
ORF1ab/nsp3503P503delCCA---11B.1.177.860.000183
ORF1ab/nsp3503P503delCCA---11B.1.20.000009
ORF1ab/nsp3503P503PccAccC11B.1.2060.000816
ORF1ab/nsp3503P503SCcaTca11B.1.2340.000132
ORF1ab/nsp3503P503SCcaTca11B.1.258.170.000104
ORF1ab/nsp3503P503SCcaTca11B.1.2790.000514
ORF1ab/nsp3503P503SCcaTca11B.1.3240.001605
ORF1ab/nsp3503P503SCcaTca11B.1.3510.00003
ORF1ab/nsp3503P503SCcaTca11B.1.351.20.000303
ORF1ab/nsp3503P503delCCA---11B.1.360.000146
ORF1ab/nsp3503P503PccAccT11B.1.36.290.000517
ORF1ab/nsp3503P503SCcaTca11B.1.3780.006849
ORF1ab/nsp3503P503SCcaTca11B.1.4270.00005
ORF1ab/nsp3503P503SCcaTca11B.1.4740.001901
ORF1ab/nsp3503P503delCCA---11B.1.5250.000113
ORF1ab/nsp3503P503PccAccT11B.1.5260.000024
ORF1ab/nsp3503P503SCcaTca11B.1.5270.003704
ORF1ab/nsp3503P503QcCacAa11B.1.5370.02
ORF1ab/nsp3503P503SCcaTca11B.1.5610.000397
ORF1ab/nsp3503P503PccAccC11B.1.5610.000397
ORF1ab/nsp3503P503SCcaTca11B.1.5680.001111
ORF1ab/nsp3503P503SCcaTca11B.1.5820.000491
ORF1ab/nsp3503P503SCcaTca11B.1.6050.005952
ORF1ab/nsp3503P503QcCacAa11B.1.6090.000479
ORF1ab/nsp3503P503SCcaTca11B.1.617.10.000129
ORF1ab/nsp3503P503LcCacTa11B.1.617.20.000004
ORF1ab/nsp3503P503SCcaTca11B.1.6210.000089
ORF1ab/nsp3503P503SCcaTca11B.1.6370.000073
ORF1ab/nsp3503P503delCCA---11B.570.015152
ORF1ab/nsp3503P503SCcaTca11C.370.000116
ORF1ab/nsp3503P503QcCacAa11D.20.000075
ORF1ab/nsp3503P503LcCacTa11D.20.000075
ORF1ab/nsp3503P503SCcaTca11N.50.001767
ORF1ab/nsp3503P503del2CCa--a11P.10.000016
ORF1ab/nsp3503P503QcCacAa11P.1.140.000048
ORF1ab/nsp3503P503PccAccG11P.1.160.000374
ORF1ab/nsp3503P503SCcaTca11P.30.001595
ORF1ab/nsp3503P503PccAccG11Q.10.000126
ORF1ab/nsp3503P503SCcaTca11Q.40.000455
ORF1ab/nsp3503P503SCcaTca11R.10.00009
ORF1ab/nsp3503P503delCCA---11R.10.00009
ORF1ab/nsp3503P503delCCA---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.