CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = L139V

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
N	139	L139V		nonsyn	Ttg	Gtg	38	35	0.921053	28688-28690
N	139	L139V		nonsyn	TtG	GtT	38	3	0.0789474	28688-28690

Details of the mutation L139V 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
N	139	L139V	Ttg	Gtg	35	38	All	0.000007
N	139	L139V	TtG	GtT	3	38	All	0.000001
N	139	L139V	Ttg	Gtg	24	24	AY.43	0.000106
N	139	L139V	Ttg	Gtg	2	4		0.111111
N	139	L139V	TtG	GtT	2	4		0.111111
N	139	L139V	Ttg	Gtg	2	3	B.1	0.000018
N	139	L139V	TtG	GtT	1	3	B.1	0.000009
N	139	L139V	Ttg	Gtg	2	2	B.1.351	0.000059
N	139	L139V	Ttg	Gtg	1	1	AY.29	0.000016
N	139	L139V	Ttg	Gtg	1	1	AY.39	0.000025
N	139	L139V	Ttg	Gtg	1	1	B.1.1	0.000018
N	139	L139V	Ttg	Gtg	1	1	B.1.320	0.001245
N	139	L139V	Ttg	Gtg	1	1	B.1.617.2	0.000004

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.