CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : Mut = K45R

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/nsp2	45	K45R	K225R	nonsyn	aAg	aGg	546	545	0.998168	938-940
ORF1ab/nsp2	45	K45R	K225R	nonsyn	aAG	aGA	546	1	0.0018315	938-940

Details of the mutation K45R 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/nsp2	45	K45R	aAg	aGg	545	546	All	0.000104
ORF1ab/nsp2	45	K45R	aAG	aGA	1	546	All	0
ORF1ab/nsp2	45	K45R	aAg	aGg	190	190	B.1.1.7	0.00017
ORF1ab/nsp2	45	K45R	aAg	aGg	52	52	AY.4	0.000081
ORF1ab/nsp2	45	K45R	aAg	aGg	37	37	B.1.2	0.000326
ORF1ab/nsp2	45	K45R	aAg	aGg	25	25	AY.103	0.000155
ORF1ab/nsp2	45	K45R	aAg	aGg	21	21	B.1.596	0.00183
ORF1ab/nsp2	45	K45R	aAg	aGg	17	17	B.1	0.000156
ORF1ab/nsp2	45	K45R	aAg	aGg	16	16	AY.4.2	0.000347
ORF1ab/nsp2	45	K45R	aAg	aGg	16	16	AY.43	0.000071
ORF1ab/nsp2	45	K45R	aAg	aGg	16	16	B.1.351	0.000476
ORF1ab/nsp2	45	K45R	aAg	aGg	16	16	B.1.617.2	0.00006
ORF1ab/nsp2	45	K45R	aAg	aGg	10	10	B.1.526	0.000235
ORF1ab/nsp2	45	K45R	aAg	aGg	9	9	A.23.1	0.006338
ORF1ab/nsp2	45	K45R	aAg	aGg	9	9	B.1.1.141	0.018109
ORF1ab/nsp2	45	K45R	aAg	aGg	7	7	AY.20	0.000272
ORF1ab/nsp2	45	K45R	aAg	aGg	7	7	B.1.221	0.000497
ORF1ab/nsp2	45	K45R	aAg	aGg	6	6	P.1	0.000095
ORF1ab/nsp2	45	K45R	aAg	aGg	5	5	AY.25	0.00003
ORF1ab/nsp2	45	K45R	aAg	aGg	5	5	B.1.1.220	0.009294
ORF1ab/nsp2	45	K45R	aAg	aGg	3	3	AY.33	0.0002
ORF1ab/nsp2	45	K45R	aAg	aGg	3	3	AY.5	0.000062
ORF1ab/nsp2	45	K45R	aAg	aGg	3	3	AY.99.2	0.000276
ORF1ab/nsp2	45	K45R	aAg	aGg	3	3	B.1.1.216	0.002671
ORF1ab/nsp2	45	K45R	aAg	aGg	3	3	B.1.324	0.004815
ORF1ab/nsp2	45	K45R	aAg	aGg	3	3	C.37	0.000348
ORF1ab/nsp2	45	K45R	aAg	aGg	1	2		0.055556
ORF1ab/nsp2	45	K45R	aAG	aGA	1	2		0.055556
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	A	0.000774
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	AY.102	0.000053
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	AY.13	0.000322
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	AY.3	0.00002
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	AY.35	0.000466
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	AY.4.5	0.000215
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	B.1.1.350	0.08
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	B.1.177	0.000026
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	B.1.36	0.000292
ORF1ab/nsp2	45	K45R	aAg	aGg	2	2	P.1.7	0.000639
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.101	0.00049
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.106	0.000335
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.117	0.000085
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.119	0.000035
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.120	0.000037
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.16	0.00038
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.16.1	0.00047
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.26	0.000028
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.29	0.000016
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.3.1	0.000085
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.31	0.018519
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.36	0.000148
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.39	0.000025
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.47	0.000031
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.52	0.000814
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.54	0.000095
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.72	0.001361
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.74	0.000116
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.75	0.000056
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.9.1	0.000084
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	AY.99	0.001049
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B	0.000128
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.1	0.000018
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.1.306	0.000438
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.1.519	0.00004
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.110.3	0.000718
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.160	0.000031
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.177.16	0.000664
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.177.4	0.000211
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.177.75	0.001041
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.234	0.000132
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.237	0.004975
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.258	0.000067
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.313	0.006579
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.36.18	0.00042
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.427	0.00005
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.429	0.000024
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.558	0.004566
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.582	0.000491
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.1.625	0.002353
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	B.6.6	0.000889
ORF1ab/nsp2	45	K45R	aAg	aGg	1	1	R.1	0.00009

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.