CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : Mut = S180N

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	S180N		nonsyn	TCt	AAt	13	9	0.692308	25930-25932
ORF3a	180	S180N		nonsyn	TCT	AAC	13	4	0.307692	25930-25932

Details of the mutation S180N 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	S180N	TCt	AAt	9	13	All	0.000002
ORF3a	180	S180N	TCT	AAC	4	13	All	0.000001
ORF3a	180	S180N	TCt	AAt	2	2	AY.26	0.000057
ORF3a	180	S180N	TCt	AAt	1	2	B.1.221	0.000071
ORF3a	180	S180N	TCT	AAC	1	2	B.1.221	0.000071
ORF3a	180	S180N	TCt	AAt	2	2	B.1.429	0.000047
ORF3a	180	S180N	TCT	AAC	1	1	AY.103	0.000006
ORF3a	180	S180N	TCt	AAt	1	1	AY.42	0.00004
ORF3a	180	S180N	TCT	AAC	1	1	B.1	0.000009
ORF3a	180	S180N	TCt	AAt	1	1	B.1.1.397	0.002252
ORF3a	180	S180N	TCt	AAt	1	1	B.1.1.7	0.000001
ORF3a	180	S180N	TCt	AAt	1	1	B.1.617.2	0.000004
ORF3a	180	S180N	TCT	AAC	1	1	P.1	0.000016

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.