CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 180 & Codon = tcA

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	180	S180S		syn	tcT	tcA	237	61	0.257384	25930-25932

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
ORF3a	180	S180S	tcT	tcA	61	237	All	0.000012
ORF3a	180	S180S	tcT	tcA	41	56	B.1.1.7	0.000037
ORF3a	180	S180S	tcT	tcA	3	24	B.1.429	0.000071
ORF3a	180	S180S	tcT	tcA	1	13	AY.4	0.000002
ORF3a	180	S180S	tcT	tcA	3	13	B.1.617.2	0.000011
ORF3a	180	S180S	tcT	tcA	2	4	AY.25	0.000012
ORF3a	180	S180S	tcT	tcA	1	3	AY.102	0.000027
ORF3a	180	S180S	tcT	tcA	1	3	B.1.2	0.000009
ORF3a	180	S180S	tcT	tcA	3	3	B.1.218	0.015464
ORF3a	180	S180S	tcT	tcA	1	3	B.1.243	0.00007
ORF3a	180	S180S	tcT	tcA	1	2	AY.20	0.000039
ORF3a	180	S180S	tcT	tcA	1	1	AY.42	0.00004
ORF3a	180	S180S	tcT	tcA	1	1	B.1.177	0.000013
ORF3a	180	S180S	tcT	tcA	1	1	B.33	0.021277
ORF3a	180	S180S	tcT	tcA	1	1	P.1.15	0.000232

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.