CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 460

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/nsp3460F460FF1278FsynttCttT2451245114097-4099
ORF1ab/nsp3460F460LF1278LnonsynTtcCtc43280.6511634097-4099
ORF1ab/nsp3460F460LF1278LnonsynttCttA43120.279074097-4099
ORF1ab/nsp3460F460LF1278LnonsynttCttG4320.04651164097-4099
ORF1ab/nsp3460F460LF1278LnonsynTtCCtT4310.02325584097-4099
ORF1ab/nsp3460F460SF1278SnonsyntTctCc38370.9736844097-4099
ORF1ab/nsp3460F460SF1278SnonsyntTCtCT3810.02631584097-4099
ORF1ab/nsp3460F460CF1278CnonsyntTctGc34330.9705884097-4099
ORF1ab/nsp3460F460CF1278CnonsyntTCtGT3410.02941184097-4099
ORF1ab/nsp3460F460IF1278InonsynTtcAtc272714097-4099
ORF1ab/nsp3460F460delF1278deldelTTC---272714097-4099
ORF1ab/nsp3460F460VF1278VnonsynTtCGtT25180.724097-4099
ORF1ab/nsp3460F460VF1278VnonsynTtcGtc2570.284097-4099
ORF1ab/nsp3460F460del1F1278del1delttCtt-530.64097-4099
ORF1ab/nsp3460F460del1F1278del1delTtC-tT510.24097-4099
ORF1ab/nsp3460F460del1F1278del1delTtc-tc510.24097-4099
ORF1ab/nsp3460F460YF1278YnonsyntTctAc4414097-4099
ORF1ab/nsp3460F460RF1278RnonsynTTCCGT210.54097-4099
ORF1ab/nsp3460F460RF1278RnonsynTTcCGc210.54097-4099
ORF1ab/nsp3460F460PF1278PnonsynTTcCCc210.54097-4099
ORF1ab/nsp3460F460PF1278PnonsynTTCCCT210.54097-4099

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/nsp3460F460FttCttT24512451All0.000469
ORF1ab/nsp3460F460FttCttT13721372B.1.1.70.001228
ORF1ab/nsp3460F460FttCttT227227B.1.5260.005336
ORF1ab/nsp3460F460FttCttT136136B.1.36.180.057143
ORF1ab/nsp3460F460FttCttT107107AY.40.000167
ORF1ab/nsp3460F460FttCttT8989AY.250.000535
ORF1ab/nsp3460F460LTtcCtc2843All0.000005
ORF1ab/nsp3460F460LttCttA1243All0.000002
ORF1ab/nsp3460F460LttCttG243All0
ORF1ab/nsp3460F460LTtCCtT143All0
ORF1ab/nsp3460F460FttCttT4343AY.260.001217
ORF1ab/nsp3460F460StTctCc3738All0.000007
ORF1ab/nsp3460F460StTCtCT138All0
ORF1ab/nsp3460F460CtTctGc3334All0.000006
ORF1ab/nsp3460F460CtTCtGT134All0
ORF1ab/nsp3460F460FttCttT2929AY.310.537037
ORF1ab/nsp3460F460ITtcAtc2727All0.000005
ORF1ab/nsp3460F460delTTC---2727All0.000005
ORF1ab/nsp3460F460FttCttT2727B.1.3990.052224
ORF1ab/nsp3460F460CtTctGc2626AY.40.00004
ORF1ab/nsp3460F460VTtCGtT1825All0.000003
ORF1ab/nsp3460F460VTtcGtc725All0.000001
ORF1ab/nsp3460F460FttCttT2525B.1.20.00022
ORF1ab/nsp3460F460FttCttT2121AY.7.10.002367
ORF1ab/nsp3460F460FttCttT2121B.1.617.20.000079
ORF1ab/nsp3460F460FttCttT1919B.1.5250.00215
ORF1ab/nsp3460F460FttCttT1818AY.430.00008
ORF1ab/nsp3460F460FttCttT1818B.1.6370.001315
ORF1ab/nsp3460F460VTtCGtT1717B.1.4290.0004
ORF1ab/nsp3460F460FttCttT1414B.10.000128
ORF1ab/nsp3460F460FttCttT1414C.370.001625
ORF1ab/nsp3460F460StTctCc1313B.1.1.70.000012
ORF1ab/nsp3460F460FttCttT1111AY.1030.000068
ORF1ab/nsp3460F460FttCttT1111AY.4.20.000239
ORF1ab/nsp3460F460FttCttT1010AY.470.000311
ORF1ab/nsp3460F460FttCttT1010B.1.3510.000297
ORF1ab/nsp3460F460FttCttT99AY.390.000222
ORF1ab/nsp3460F460FttCttT99AY.440.000055
ORF1ab/nsp3460F460FttCttT99B.1.1.5190.000357
ORF1ab/nsp3460F460delTTC---99B.1.1.70.000008
ORF1ab/nsp3460F460ITtcAtc99B.1.617.20.000034
ORF1ab/nsp3460F460FttCttT88P.10.000126
ORF1ab/nsp3460F460LTtcCtc67B.1.1.70.000005
ORF1ab/nsp3460F460LttCttA17B.1.1.70.000001
ORF1ab/nsp3460F460FttCttT77B.1.1600.000218
ORF1ab/nsp3460F460LttCttA77P.10.00011
ORF1ab/nsp3460F460FttCttT66AY.1200.000223
ORF1ab/nsp3460F460FttCttT66AY.200.000233
ORF1ab/nsp3460F460FttCttT66B.1.5670.02
ORF1ab/nsp3460F460del1ttCtt-35All0.000001
ORF1ab/nsp3460F460del1TtC-tT15All0
ORF1ab/nsp3460F460del1Ttc-tc15All0
ORF1ab/nsp3460F460FttCttT55AY.1210.000677
ORF1ab/nsp3460F460LTtcCtc55AY.30.00005
ORF1ab/nsp3460F460FttCttT55AY.50.000103
ORF1ab/nsp3460F460FttCttT55B.1.10.000091
ORF1ab/nsp3460F460FttCttT55B.1.2210.000355
ORF1ab/nsp3460F460YtTctAc44All0.000001
ORF1ab/nsp3460F460FttCttT44AY.1020.000106
ORF1ab/nsp3460F460ITtcAtc44AY.1020.000106
ORF1ab/nsp3460F460StTctCc44AY.1030.000025
ORF1ab/nsp3460F460FttCttT44AY.1160.001147
ORF1ab/nsp3460F460StTctCc44AY.250.000024
ORF1ab/nsp3460F460FttCttT44AY.30.00004
ORF1ab/nsp3460F460FttCttT44AY.330.000267
ORF1ab/nsp3460F460LTtcCtc44AY.40.000006
ORF1ab/nsp3460F460FttCttT44AY.46.60.000289
ORF1ab/nsp3460F460FttCttT44B.1.1.2220.000816
ORF1ab/nsp3460F460FttCttT44B.1.1.2530.010025
ORF1ab/nsp3460F460ITtcAtc44B.1.1.70.000004
ORF1ab/nsp3460F460FttCttT44B.1.1770.000053
ORF1ab/nsp3460F460FttCttT44B.1.2430.000278
ORF1ab/nsp3460F460FttCttT44B.1.369.10.108108
ORF1ab/nsp3460F460FttCttT44B.1.6210.000354
ORF1ab/nsp3460F460FttCttT44Q.20.002454
ORF1ab/nsp3460F460ITtcAtc33AY.1030.000019
ORF1ab/nsp3460F460FttCttT33AY.1130.000427
ORF1ab/nsp3460F460FttCttT33AY.140.000264
ORF1ab/nsp3460F460delTTC---33B.10.000027
ORF1ab/nsp3460F460FttCttT33B.1.1.3180.000905
ORF1ab/nsp3460F460FttCttT33B.1.1.3860.2
ORF1ab/nsp3460F460del1ttCtt-33B.1.1.70.000003
ORF1ab/nsp3460F460FttCttT33B.1.4270.000151
ORF1ab/nsp3460F460FttCttT33B.1.4410.028846
ORF1ab/nsp3460F460CtTctGc33B.1.617.20.000011
ORF1ab/nsp3460F460FttCttT33Q.30.000435
ORF1ab/nsp3460F460FttCttT33Q.80.000495
ORF1ab/nsp3460F460CtTCtGT120.055556
ORF1ab/nsp3460F460CtTctGc120.055556
ORF1ab/nsp3460F460RTTcCGc120.055556
ORF1ab/nsp3460F460RTTCCGT120.055556
ORF1ab/nsp3460F460LTtCCtT120.055556
ORF1ab/nsp3460F460StTCtCT120.055556
ORF1ab/nsp3460F460StTctCc120.055556
ORF1ab/nsp3460F460PTTCCCT120.055556
ORF1ab/nsp3460F460LTtcCtc120.055556
ORF1ab/nsp3460F460PTTcCCc120.055556
ORF1ab/nsp3460F460FttCttT22A.2.50.000998
ORF1ab/nsp3460F460PTTcCCc12All0
ORF1ab/nsp3460F460PTTCCCT12All0
ORF1ab/nsp3460F460RTTcCGc12All0
ORF1ab/nsp3460F460RTTCCGT12All0
ORF1ab/nsp3460F460FttCttT22AY.1060.00067
ORF1ab/nsp3460F460FttCttT22AY.1170.000169
ORF1ab/nsp3460F460LTtcCtc22AY.250.000012
ORF1ab/nsp3460F460StTctCc22AY.450.000243
ORF1ab/nsp3460F460FttCttT22AY.530.000575
ORF1ab/nsp3460F460FttCttT22AY.690.000373
ORF1ab/nsp3460F460CtTctGc22AY.7.10.000225
ORF1ab/nsp3460F460FttCttT22AY.770.002255
ORF1ab/nsp3460F460YtTctAc22B.10.000018
ORF1ab/nsp3460F460StTctCc22B.10.000018
ORF1ab/nsp3460F460LttCttA22B.10.000018
ORF1ab/nsp3460F460FttCttT22B.1.1.1590.009346
ORF1ab/nsp3460F460LttCttG22B.1.160.70.004158
ORF1ab/nsp3460F460FttCttT22B.1.177.210.000153
ORF1ab/nsp3460F460FttCttT22B.1.177.70.00033
ORF1ab/nsp3460F460FttCttT22B.1.258.170.000208
ORF1ab/nsp3460F460FttCttT22B.1.360.000292
ORF1ab/nsp3460F460LttCttA12B.1.4290.000024
ORF1ab/nsp3460F460LTtcCtc12B.1.4290.000024
ORF1ab/nsp3460F460ITtcAtc22B.1.5260.000047
ORF1ab/nsp3460F460FttCttT22B.1.575.10.004878
ORF1ab/nsp3460F460FttCttT22P.1.140.000096
ORF1ab/nsp3460F460FttCttT110.055556
ORF1ab/nsp3460F460FttCttT11A.210.00277
ORF1ab/nsp3460F460StTctCc11AY.1020.000027
ORF1ab/nsp3460F460del1Ttc-tc11AY.1030.000006
ORF1ab/nsp3460F460FttCttT11AY.1090.00074
ORF1ab/nsp3460F460FttCttT11AY.1180.000063
ORF1ab/nsp3460F460delTTC---11AY.1200.000037
ORF1ab/nsp3460F460FttCttT11AY.120.2.10.000498
ORF1ab/nsp3460F460FttCttT11AY.160.00038
ORF1ab/nsp3460F460VTtcGtc11AY.200.000039
ORF1ab/nsp3460F460FttCttT11AY.210.001898
ORF1ab/nsp3460F460FttCttT11AY.230.00007
ORF1ab/nsp3460F460FttCttT11AY.240.000431
ORF1ab/nsp3460F460FttCttT11AY.290.000016
ORF1ab/nsp3460F460LTtcCtc11AY.330.000067
ORF1ab/nsp3460F460FttCttT11AY.340.000097
ORF1ab/nsp3460F460CtTctGc11AY.370.000316
ORF1ab/nsp3460F460ITtcAtc11AY.390.000025
ORF1ab/nsp3460F460FttCttT11AY.39.10.00004
ORF1ab/nsp3460F460StTctCc11AY.40.000002
ORF1ab/nsp3460F460delTTC---11AY.40.000002
ORF1ab/nsp3460F460StTctCc11AY.4.20.000022
ORF1ab/nsp3460F460FttCttT11AY.4.50.000107
ORF1ab/nsp3460F460VTtcGtc11AY.440.000006
ORF1ab/nsp3460F460ITtcAtc11AY.450.000122
ORF1ab/nsp3460F460LTtcCtc11AY.460.000104
ORF1ab/nsp3460F460VTtcGtc11AY.46.20.000635
ORF1ab/nsp3460F460delTTC---11AY.46.60.000072
ORF1ab/nsp3460F460ITtcAtc11AY.50.000021
ORF1ab/nsp3460F460StTctCc11AY.5.30.000337
ORF1ab/nsp3460F460FttCttT11AY.5.40.000277
ORF1ab/nsp3460F460YtTctAc11AY.540.000095
ORF1ab/nsp3460F460FttCttT11AY.590.00053
ORF1ab/nsp3460F460delTTC---11AY.670.000464
ORF1ab/nsp3460F460FttCttT11AY.70.000196
ORF1ab/nsp3460F460FttCttT11AY.750.000056
ORF1ab/nsp3460F460FttCttT11AY.780.001541
ORF1ab/nsp3460F460FttCttT11AY.830.001724
ORF1ab/nsp3460F460FttCttT11AY.980.000079
ORF1ab/nsp3460F460FttCttT11AY.98.10.000048
ORF1ab/nsp3460F460delTTC---11B0.000128
ORF1ab/nsp3460F460StTctCc11B.1.10.000018
ORF1ab/nsp3460F460LTtcCtc11B.1.1.1210.002427
ORF1ab/nsp3460F460FttCttT11B.1.1.1710.003676
ORF1ab/nsp3460F460LTtcCtc11B.1.1.2140.000055
ORF1ab/nsp3460F460FttCttT11B.1.1.2370.005405
ORF1ab/nsp3460F460FttCttT11B.1.1.2630.001558
ORF1ab/nsp3460F460FttCttT11B.1.1.2770.000759
ORF1ab/nsp3460F460FttCttT11B.1.1.280.000311
ORF1ab/nsp3460F460FttCttT11B.1.1.2840.000107
ORF1ab/nsp3460F460FttCttT11B.1.1.2940.001266
ORF1ab/nsp3460F460FttCttT11B.1.1.330.000421
ORF1ab/nsp3460F460FttCttT11B.1.1.3440.010753
ORF1ab/nsp3460F460FttCttT11B.1.1.3560.008547
ORF1ab/nsp3460F460FttCttT11B.1.1.370.000193
ORF1ab/nsp3460F460StTctCc11B.1.1.5190.00004
ORF1ab/nsp3460F460delTTC---11B.1.1.5190.00004
ORF1ab/nsp3460F460VTtcGtc11B.1.1.70.000001
ORF1ab/nsp3460F460FttCttT11B.1.1.700.000341
ORF1ab/nsp3460F460FttCttT11B.1.1260.001276
ORF1ab/nsp3460F460LTtcCtc11B.1.160.260.002421
ORF1ab/nsp3460F460FttCttT11B.1.177.120.000152
ORF1ab/nsp3460F460delTTC---11B.1.177.160.000664
ORF1ab/nsp3460F460delTTC---11B.1.177.40.000211
ORF1ab/nsp3460F460FttCttT11B.1.177.600.000218
ORF1ab/nsp3460F460FttCttT11B.1.177.670.007634
ORF1ab/nsp3460F460FttCttT11B.1.177.690.001484
ORF1ab/nsp3460F460FttCttT11B.1.1940.04
ORF1ab/nsp3460F460ITtcAtc11B.1.20.000009
ORF1ab/nsp3460F460StTctCc11B.1.20.000009
ORF1ab/nsp3460F460LTtcCtc11B.1.20.000009
ORF1ab/nsp3460F460del1TtC-tT11B.1.20.000009
ORF1ab/nsp3460F460FttCttT11B.1.2060.000816
ORF1ab/nsp3460F460VTtcGtc11B.1.2210.000071
ORF1ab/nsp3460F460delTTC---11B.1.2210.000071
ORF1ab/nsp3460F460LTtcCtc11B.1.2360.002053
ORF1ab/nsp3460F460delTTC---11B.1.360.000146
ORF1ab/nsp3460F460FttCttT11B.1.36.190.009259
ORF1ab/nsp3460F460YtTctAc11B.1.36.220.001208
ORF1ab/nsp3460F460VTtCGtT11B.1.3670.000792
ORF1ab/nsp3460F460LTtcCtc11B.1.3690.000285
ORF1ab/nsp3460F460FttCttT11B.1.3750.00082
ORF1ab/nsp3460F460FttCttT11B.1.4290.000024
ORF1ab/nsp3460F460delTTC---11B.1.4290.000024
ORF1ab/nsp3460F460FttCttT11B.1.5410.004425
ORF1ab/nsp3460F460StTctCc11B.1.5820.000491
ORF1ab/nsp3460F460FttCttT11B.1.5960.000087
ORF1ab/nsp3460F460StTctCc11B.1.617.10.000129
ORF1ab/nsp3460F460VTtcGtc11B.1.617.20.000004
ORF1ab/nsp3460F460StTctCc11B.1.617.20.000004
ORF1ab/nsp3460F460LTtcCtc11B.1.617.20.000004
ORF1ab/nsp3460F460delTTC---11B.570.015152
ORF1ab/nsp3460F460FttCttT11N.50.001767
ORF1ab/nsp3460F460FttCttT11N.90.005952
ORF1ab/nsp3460F460StTctCc11P.10.000016
ORF1ab/nsp3460F460delTTC---11P.10.000016
ORF1ab/nsp3460F460ITtcAtc11P.10.000016
ORF1ab/nsp3460F460FttCttT11P.1.120.000484
ORF1ab/nsp3460F460FttCttT11P.1.150.000232
ORF1ab/nsp3460F460VTtcGtc11P.1.170.000162
ORF1ab/nsp3460F460LttCttA11Q.10.000126
ORF1ab/nsp3460F460FttCttT11Q.10.000126
ORF1ab/nsp3460F460FttCttT11Q.40.000455
ORF1ab/nsp3460F460delTTC---11R.10.00009
ORF1ab/nsp3460F460delTTC---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.