CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1857 & Codon = cCc

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/nsp3	1857	L1857P	L2675P	nonsyn	cTc	cCc	60	59	0.983333	8288-8290

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/nsp3	1857	L1857P	cTc	cCc	59	60	All	0.000011
ORF1ab/nsp3	1857	L1857P	cTc	cCc	15	15	B.1.617.2	0.000056
ORF1ab/nsp3	1857	L1857P	cTc	cCc	12	12	AY.103	0.000075
ORF1ab/nsp3	1857	L1857P	cTc	cCc	10	10	B.1.1.7	0.000009
ORF1ab/nsp3	1857	L1857P	cTc	cCc	9	9	AY.4	0.000014
ORF1ab/nsp3	1857	L1857P	cTc	cCc	3	3	AY.23	0.000209
ORF1ab/nsp3	1857	L1857P	cTc	cCc	2	2	B.1.177	0.000026
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1		0.055556
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1	AY.3	0.00001
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1	AY.87	0.000833
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1	AY.88	0.000884
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1	B.1	0.000009
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1	B.1.1.1	0.000327
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1	B.1.596	0.000087
ORF1ab/nsp3	1857	L1857P	cTc	cCc	1	1	Q.3	0.000145

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.