CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : Mut = G196del1

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
ORF3a	196	G196del1		del	Gga	-ga	17	8	0.470588	25978-25980
ORF3a	196	G196del1		del	ggA	gg-	17	7	0.411765	25978-25980
ORF3a	196	G196del1		del	GgA	Ng-	17	2	0.117647	25978-25980

Details of the mutation G196del1 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
ORF3a	196	G196del1	Gga	-ga	8	17	All	0.000002
ORF3a	196	G196del1	ggA	gg-	7	17	All	0.000001
ORF3a	196	G196del1	GgA	Ng-	2	17	All	0
ORF3a	196	G196del1	ggA	gg-	3	5	B.1.1.7	0.000003
ORF3a	196	G196del1	Gga	-ga	2	5	B.1.1.7	0.000002
ORF3a	196	G196del1	ggA	gg-	3	3	B.1.258	0.0002
ORF3a	196	G196del1	GgA	Ng-	2	2		0.111111
ORF3a	196	G196del1	Gga	-ga	2	2	AY.44	0.000012
ORF3a	196	G196del1	Gga	-ga	1	1	A	0.000387
ORF3a	196	G196del1	Gga	-ga	1	1	AY.3	0.00001
ORF3a	196	G196del1	Gga	-ga	1	1	AY.4	0.000002
ORF3a	196	G196del1	Gga	-ga	1	1	AY.9.2	0.000037
ORF3a	196	G196del1	ggA	gg-	1	1	B.1.1.39	0.00051

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.