CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = N : Mut = S33R

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	33	S33R		nonsyn	agT	agG	44	24	0.545455	28370-28372
N	33	S33R		nonsyn	agT	agA	44	17	0.386364	28370-28372
N	33	S33R		nonsyn	Agt	Cgt	44	3	0.0681818	28370-28372

Details of the mutation S33R 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	33	S33R	agT	agG	24	44	All	0.000005
N	33	S33R	agT	agA	17	44	All	0.000003
N	33	S33R	Agt	Cgt	3	44	All	0.000001
N	33	S33R	agT	agG	8	8	AY.4	0.000012
N	33	S33R	agT	agG	6	6	B.1.351	0.000178
N	33	S33R	agT	agA	3	4	B.1.177	0.00004
N	33	S33R	agT	agG	1	4	B.1.177	0.000013
N	33	S33R	agT	agA	3	3	B.1.1.189	0.004539
N	33	S33R	agT	agG	2	2	AY.70	0.000417
N	33	S33R	agT	agA	2	2	B.1.177.60	0.000437
N	33	S33R	agT	agG	2	2	B.1.2	0.000018
N	33	S33R	agT	agA	2	2	B.1.243	0.000139
N	33	S33R	Agt	Cgt	1	2	B.1.617.2	0.000004
N	33	S33R	agT	agA	1	2	B.1.617.2	0.000004
N	33	S33R	agT	agG	1	1	AY.103	0.000006
N	33	S33R	Agt	Cgt	1	1	AY.14	0.000088
N	33	S33R	agT	agG	1	1	AY.39	0.000025
N	33	S33R	Agt	Cgt	1	1	B.1	0.000009
N	33	S33R	agT	agG	1	1	B.1.1.306	0.000438
N	33	S33R	agT	agA	1	1	B.1.1.438	0.05
N	33	S33R	agT	agA	1	1	B.1.221	0.000071
N	33	S33R	agT	agG	1	1	B.1.416	0.001269
N	33	S33R	agT	agA	1	1	B.1.428	0.00102
N	33	S33R	agT	agA	1	1	B.1.526	0.000024
N	33	S33R	agT	agA	1	1	B.1.538	0.008065
N	33	S33R	agT	agA	1	1	B.1.565	0.00081
N	33	S33R	agT	agG	1	1	P.2	0.000187

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.