CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 821

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORF	CodonNum	Mut	ORF1abMut	MutType	RefCodon	MutCodon	AACount	CodonCount	CodonProp	Genome Position
ORF1ab/nsp12	821	K821K	K5213K	syn	aaA	aaG	223	223	1	15901-15903
ORF1ab/nsp12	821	K821R	K5213R	nonsyn	aAa	aGa	198	197	0.99495	15901-15903
ORF1ab/nsp12	821	K821R	K5213R	nonsyn	aAA	aGG	198	1	0.00505051	15901-15903
ORF1ab/nsp12	821	K821E	K5213E	nonsyn	Aaa	Gaa	25	25	1	15901-15903
ORF1ab/nsp12	821	K821T	K5213T	nonsyn	aAa	aCa	11	11	1	15901-15903
ORF1ab/nsp12	821	K821Q	K5213Q	nonsyn	Aaa	Caa	9	9	1	15901-15903
ORF1ab/nsp12	821	K821del	K5213del	del	AAA	---	6	6	1	15901-15903
ORF1ab/nsp12	821	K821del1	K5213del1	del	aaA	aa-	6	4	0.666667	15901-15903
ORF1ab/nsp12	821	K821N	K5213N	nonsyn	aaA	aaC	6	3	0.5	15901-15903
ORF1ab/nsp12	821	K821N	K5213N	nonsyn	aaA	aaT	6	3	0.5	15901-15903
ORF1ab/nsp12	821	K821del1	K5213del1	del	Aaa	-aa	6	2	0.333333	15901-15903
ORF1ab/nsp12	821	K821X	K5213X	nonsyn	Aaa	Taa	5	5	1	15901-15903
ORF1ab/nsp12	821	K821A	K5213A	nonsyn	AAA	GCT	1	1	1	15901-15903
ORF1ab/nsp12	821	K821G	K5213G	nonsyn	AAA	GGG	1	1	1	15901-15903
ORF1ab/nsp12	821	K821I	K5213I	nonsyn	aAA	aTT	1	1	1	15901-15903

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

ORF	CodonNum	Mut	RefCodon	MutCodon	CodonCount	AACount	Lineage	LineageCodonProp
ORF1ab/nsp12	821	K821K	aaA	aaG	223	223	All	0.000043
ORF1ab/nsp12	821	K821R	aAa	aGa	197	198	All	0.000038
ORF1ab/nsp12	821	K821R	aAA	aGG	1	198	All	0
ORF1ab/nsp12	821	K821R	aAa	aGa	98	98	AY.33	0.006544
ORF1ab/nsp12	821	K821K	aaA	aaG	45	45	B.1.1.7	0.00004
ORF1ab/nsp12	821	K821K	aaA	aaG	32	32	B.1.617.2	0.00012
ORF1ab/nsp12	821	K821E	Aaa	Gaa	25	25	All	0.000005
ORF1ab/nsp12	821	K821K	aaA	aaG	16	16	AY.74	0.00185
ORF1ab/nsp12	821	K821R	aAa	aGa	16	16	B.1.1.7	0.000014
ORF1ab/nsp12	821	K821R	aAa	aGa	15	15	B.1.234	0.001979
ORF1ab/nsp12	821	K821T	aAa	aCa	11	11	All	0.000002
ORF1ab/nsp12	821	K821K	aaA	aaG	10	10	AY.102	0.000265
ORF1ab/nsp12	821	K821K	aaA	aaG	10	10	AY.4	0.000016
ORF1ab/nsp12	821	K821Q	Aaa	Caa	9	9	All	0.000002
ORF1ab/nsp12	821	K821R	aAa	aGa	9	9	AY.27	0.000582
ORF1ab/nsp12	821	K821K	aaA	aaG	9	9	AY.39	0.000222
ORF1ab/nsp12	821	K821K	aaA	aaG	9	9	B.1.362	0.013867
ORF1ab/nsp12	821	K821K	aaA	aaG	8	8	AY.25	0.000048
ORF1ab/nsp12	821	K821R	aAa	aGa	8	8	AY.99.2	0.000737
ORF1ab/nsp12	821	K821R	aAa	aGa	7	7	AY.118	0.000439
ORF1ab/nsp12	821	K821K	aaA	aaG	7	7	AY.43	0.000031
ORF1ab/nsp12	821	K821R	aAa	aGa	7	7	B.1.2	0.000062
ORF1ab/nsp12	821	K821E	Aaa	Gaa	7	7	B.1.258	0.000466
ORF1ab/nsp12	821	K821K	aaA	aaG	7	7	B.1.316	0.777778
ORF1ab/nsp12	821	K821del	AAA	---	6	6	All	0.000001
ORF1ab/nsp12	821	K821del1	aaA	aa-	4	6	All	0.000001
ORF1ab/nsp12	821	K821N	aaA	aaT	3	6	All	0.000001
ORF1ab/nsp12	821	K821N	aaA	aaC	3	6	All	0.000001
ORF1ab/nsp12	821	K821del1	Aaa	-aa	2	6	All	0
ORF1ab/nsp12	821	K821E	Aaa	Gaa	6	6	AY.29	0.000095
ORF1ab/nsp12	821	K821R	aAa	aGa	6	6	AY.47	0.000187
ORF1ab/nsp12	821	K821X	Aaa	Taa	5	5	All	0.000001
ORF1ab/nsp12	821	K821R	aAa	aGa	5	5	AY.4	0.000008
ORF1ab/nsp12	821	K821R	aAa	aGa	5	5	AY.43	0.000022
ORF1ab/nsp12	821	K821T	aAa	aCa	5	5	B.1.617.1	0.000645
ORF1ab/nsp12	821	K821Q	Aaa	Caa	4	4	AY.4	0.000006
ORF1ab/nsp12	821	K821K	aaA	aaG	4	4	B.1	0.000037
ORF1ab/nsp12	821	K821K	aaA	aaG	4	4	B.1.1	0.000073
ORF1ab/nsp12	821	K821Q	Aaa	Caa	4	4	B.1.1.7	0.000004
ORF1ab/nsp12	821	K821K	aaA	aaG	4	4	B.1.177.72	0.013559
ORF1ab/nsp12	821	K821K	aaA	aaG	4	4	B.1.2	0.000035
ORF1ab/nsp12	821	K821R	aAa	aGa	4	4	B.1.526	0.000094
ORF1ab/nsp12	821	K821K	aaA	aaG	4	4	P.1	0.000063
ORF1ab/nsp12	821	K821K	aaA	aaG	3	3	AY.100	0.000138
ORF1ab/nsp12	821	K821K	aaA	aaG	3	3	AY.103	0.000019
ORF1ab/nsp12	821	K821R	aAa	aGa	3	3	AY.103	0.000019
ORF1ab/nsp12	821	K821R	aAa	aGa	3	3	AY.119	0.000106
ORF1ab/nsp12	821	K821X	Aaa	Taa	3	3	B.1	0.000027
ORF1ab/nsp12	821	K821K	aaA	aaG	3	3	B.1.621	0.000266
ORF1ab/nsp12	821	K821T	aAa	aCa	2	2	A.2.5	0.000998
ORF1ab/nsp12	821	K821K	aaA	aaG	2	2	A.27	0.003311
ORF1ab/nsp12	821	K821K	aaA	aaG	2	2	AY.117	0.000169
ORF1ab/nsp12	821	K821K	aaA	aaG	2	2	AY.3	0.00002
ORF1ab/nsp12	821	K821E	Aaa	Gaa	2	2	AY.58	0.001815
ORF1ab/nsp12	821	K821R	aAa	aGa	2	2	AY.98.1	0.000097
ORF1ab/nsp12	821	K821K	aaA	aaG	2	2	B.1.1.284	0.000215
ORF1ab/nsp12	821	K821del1	aaA	aa-	2	2	B.1.1.7	0.000002
ORF1ab/nsp12	821	K821del1	Aaa	-aa	2	2	B.1.2	0.000018
ORF1ab/nsp12	821	K821K	aaA	aaG	2	2	B.1.36.35	0.005208
ORF1ab/nsp12	821	K821K	aaA	aaG	2	2	B.1.429	0.000047
ORF1ab/nsp12	821	K821R	aAa	aGa	2	2	P.1	0.000032
ORF1ab/nsp12	821	K821E	Aaa	Gaa	2	2	Q.1	0.000253
ORF1ab/nsp12	821	K821Q	Aaa	Caa	1	1		0.055556
ORF1ab/nsp12	821	K821A	AAA	GCT	1	1	All	0
ORF1ab/nsp12	821	K821G	AAA	GGG	1	1	All	0
ORF1ab/nsp12	821	K821I	aAA	aTT	1	1	All	0
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	AY.103	0.000006
ORF1ab/nsp12	821	K821R	aAa	aGa	1	1	AY.106	0.000335
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.11	0.001339
ORF1ab/nsp12	821	K821T	aAa	aCa	1	1	AY.113	0.000142
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.120	0.000037
ORF1ab/nsp12	821	K821del1	aaA	aa-	1	1	AY.19	0.00114
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.20	0.000039
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.23	0.00007
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.26	0.000028
ORF1ab/nsp12	821	K821N	aaA	aaC	1	1	AY.3	0.00001
ORF1ab/nsp12	821	K821R	aAa	aGa	1	1	AY.3.1	0.000085
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.33	0.000067
ORF1ab/nsp12	821	K821T	aAa	aCa	1	1	AY.4	0.000002
ORF1ab/nsp12	821	K821I	aAA	aTT	1	1	AY.4	0.000002
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	AY.4	0.000002
ORF1ab/nsp12	821	K821N	aaA	aaC	1	1	AY.40	0.000964
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.42	0.00004
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.46	0.000104
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.46.6	0.000072
ORF1ab/nsp12	821	K821N	aaA	aaC	1	1	AY.5	0.000021
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.62	0.000436
ORF1ab/nsp12	821	K821del	AAA	---	1	1	AY.75.1	0.00018
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.9	0.000068
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	AY.9.1	0.000084
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.92	0.000287
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.98	0.000079
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	AY.99.2	0.000092
ORF1ab/nsp12	821	K821N	aaA	aaT	1	1	B.1	0.000009
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	B.1	0.000009
ORF1ab/nsp12	821	K821G	AAA	GGG	1	1	B.1.1	0.000018
ORF1ab/nsp12	821	K821del	AAA	---	1	1	B.1.1	0.000018
ORF1ab/nsp12	821	K821T	aAa	aCa	1	1	B.1.1	0.000018
ORF1ab/nsp12	821	K821N	aaA	aaT	1	1	B.1.1.234	0.012048
ORF1ab/nsp12	821	K821del1	aaA	aa-	1	1	B.1.1.236	0.006897
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	B.1.1.39	0.00051
ORF1ab/nsp12	821	K821R	aAa	aGa	1	1	B.1.1.416	0.000905
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.1.442	0.018519
ORF1ab/nsp12	821	K821del	AAA	---	1	1	B.1.1.7	0.000001
ORF1ab/nsp12	821	K821del	AAA	---	1	1	B.1.1.70	0.000341
ORF1ab/nsp12	821	K821X	Aaa	Taa	1	1	B.1.139	0.000733
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.160	0.000031
ORF1ab/nsp12	821	K821R	aAA	aGG	1	1	B.1.160.16	0.000929
ORF1ab/nsp12	821	K821R	aAa	aGa	1	1	B.1.177	0.000013
ORF1ab/nsp12	821	K821del	AAA	---	1	1	B.1.177.83	0.001481
ORF1ab/nsp12	821	K821A	AAA	GCT	1	1	B.1.221	0.000071
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.236	0.002053
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.241	0.000812
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.247	0.014925
ORF1ab/nsp12	821	K821N	aaA	aaT	1	1	B.1.336	0.002439
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.351	0.00003
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	B.1.367	0.000792
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.37	0.014706
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.396	0.000706
ORF1ab/nsp12	821	K821R	aAa	aGa	1	1	B.1.427	0.00005
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.466.2	0.000391
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.617.1	0.000129
ORF1ab/nsp12	821	K821T	aAa	aCa	1	1	B.1.617.2	0.000004
ORF1ab/nsp12	821	K821R	aAa	aGa	1	1	B.1.617.2	0.000004
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	B.1.617.2	0.000004
ORF1ab/nsp12	821	K821del	AAA	---	1	1	B.1.617.2	0.000004
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	B.1.637	0.000073
ORF1ab/nsp12	821	K821E	Aaa	Gaa	1	1	B.3	0.000831
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	C.37	0.000116
ORF1ab/nsp12	821	K821X	Aaa	Taa	1	1	D.2	0.000075
ORF1ab/nsp12	821	K821R	aAa	aGa	1	1	P.1.14	0.000048
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	P.1.14	0.000048
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	P.1.2	0.001156
ORF1ab/nsp12	821	K821K	aaA	aaG	1	1	P.2	0.000187

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.