CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 199 & Codon = Tcc

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/nsp13	199	T199S	T5523S	nonsyn	Acc	Tcc	19	11	0.578947	16831-16833

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/nsp13	199	T199S	Acc	Tcc	11	19	All	0.000002
ORF1ab/nsp13	199	T199S	Acc	Tcc	3	4	B.1.1.7	0.000003
ORF1ab/nsp13	199	T199S	Acc	Tcc	2	4	B.1.617.2	0.000008
ORF1ab/nsp13	199	T199S	Acc	Tcc	2	2		0.111111
ORF1ab/nsp13	199	T199S	Acc	Tcc	1	2	AY.113	0.000142
ORF1ab/nsp13	199	T199S	Acc	Tcc	1	2	AY.9.2	0.000037
ORF1ab/nsp13	199	T199S	Acc	Tcc	1	1	AY.98.1	0.000048
ORF1ab/nsp13	199	T199S	Acc	Tcc	1	1	B.1.596	0.000087

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.