CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp1 : Mut = T170A

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/nsp1	170	T170A	T170A	nonsyn	Acc	Gcc	92	90	0.978261	773-775
ORF1ab/nsp1	170	T170A	T170A	nonsyn	AcC	GcT	92	2	0.0217391	773-775

Details of the mutation T170A 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/nsp1	170	T170A	Acc	Gcc	90	92	All	0.000017
ORF1ab/nsp1	170	T170A	AcC	GcT	2	92	All	0
ORF1ab/nsp1	170	T170A	Acc	Gcc	20	20	AY.4	0.000031
ORF1ab/nsp1	170	T170A	Acc	Gcc	10	10	B.1.1.7	0.000009
ORF1ab/nsp1	170	T170A	Acc	Gcc	8	8	AY.47	0.000249
ORF1ab/nsp1	170	T170A	Acc	Gcc	7	7	AY.103	0.000043
ORF1ab/nsp1	170	T170A	Acc	Gcc	6	6	AY.25	0.000036
ORF1ab/nsp1	170	T170A	Acc	Gcc	6	6	AY.39	0.000148
ORF1ab/nsp1	170	T170A	Acc	Gcc	5	5	B.1.2	0.000044
ORF1ab/nsp1	170	T170A	Acc	Gcc	4	4	AY.4.2	0.000087
ORF1ab/nsp1	170	T170A	Acc	Gcc	3	4	B.1.617.2	0.000011
ORF1ab/nsp1	170	T170A	AcC	GcT	1	4	B.1.617.2	0.000004
ORF1ab/nsp1	170	T170A	Acc	Gcc	3	3	AY.102	0.00008
ORF1ab/nsp1	170	T170A	Acc	Gcc	3	3	AY.44	0.000018
ORF1ab/nsp1	170	T170A	AcC	GcT	1	2		0.055556
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	2		0.055556
ORF1ab/nsp1	170	T170A	Acc	Gcc	2	2	AY.43	0.000009
ORF1ab/nsp1	170	T170A	Acc	Gcc	2	2	B.1	0.000018
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	AY.23	0.00007
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	AY.29	0.000016
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	AY.54	0.000095
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	B.1.1.265	0.003155
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	B.1.177	0.000013
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	B.1.177.86	0.000183
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	B.1.380	0.006623
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	B.1.525	0.000113
ORF1ab/nsp1	170	T170A	Acc	Gcc	1	1	B.1.621	0.000089
ORF1ab/nsp1	170	T170A	Acc	Gcc	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.