CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 65 & Codon = cCc

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	65	L65P		nonsyn	cTc	cCc	753	750	0.996016	25585-25587

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
ORF3a	65	L65P	cTc	cCc	750	753	All	0.000143
ORF3a	65	L65P	cTc	cCc	230	230	B.1.1.7	0.000206
ORF3a	65	L65P	cTc	cCc	154	154	AY.4	0.00024
ORF3a	65	L65P	cTc	cCc	52	52	B.1.617.2	0.000196
ORF3a	65	L65P	cTc	cCc	49	49	AY.3	0.000487
ORF3a	65	L65P	cTc	cCc	42	42	AY.100	0.001932
ORF3a	65	L65P	cTc	cCc	29	29	AY.44	0.000177
ORF3a	65	L65P	cTc	cCc	23	23	B.1.621	0.002036
ORF3a	65	L65P	cTc	cCc	20	20	AY.25	0.00012
ORF3a	65	L65P	cTc	cCc	19	19	B.1.1.160	0.452381
ORF3a	65	L65P	cTc	cCc	17	17	B.1.221	0.001208
ORF3a	65	L65P	cTc	cCc	15	15	AY.43	0.000066
ORF3a	65	L65P	cTc	cCc	9	9	B.1.1	0.000163
ORF3a	65	L65P	cTc	cCc	5	7		0.277778
ORF3a	65	L65P	cTc	cCc	7	7	P.1	0.00011
ORF3a	65	L65P	cTc	cCc	5	6	B.1	0.000046
ORF3a	65	L65P	cTc	cCc	6	6	P.1.14	0.000287
ORF3a	65	L65P	cTc	cCc	5	5	AY.39.1	0.000198
ORF3a	65	L65P	cTc	cCc	4	4	B.1.1.284	0.00043
ORF3a	65	L65P	cTc	cCc	4	4	B.1.177	0.000053
ORF3a	65	L65P	cTc	cCc	4	4	P.1.4	0.003906
ORF3a	65	L65P	cTc	cCc	3	3	AY.51	0.002727
ORF3a	65	L65P	cTc	cCc	3	3	B.1.36.17	0.001482
ORF3a	65	L65P	cTc	cCc	2	2	AY.103	0.000012
ORF3a	65	L65P	cTc	cCc	2	2	AY.20	0.000078
ORF3a	65	L65P	cTc	cCc	2	2	AY.46.6	0.000144
ORF3a	65	L65P	cTc	cCc	2	2	B.1.2	0.000018
ORF3a	65	L65P	cTc	cCc	2	2	B.1.427	0.000101
ORF3a	65	L65P	cTc	cCc	2	2	C.37	0.000232
ORF3a	65	L65P	cTc	cCc	2	2	P.1.6	0.003891
ORF3a	65	L65P	cTc	cCc	1	1	AY.116	0.000287
ORF3a	65	L65P	cTc	cCc	1	1	AY.119	0.000035
ORF3a	65	L65P	cTc	cCc	1	1	AY.28	0.00189
ORF3a	65	L65P	cTc	cCc	1	1	AY.29	0.000016
ORF3a	65	L65P	cTc	cCc	1	1	AY.36	0.000148
ORF3a	65	L65P	cTc	cCc	1	1	AY.39	0.000025
ORF3a	65	L65P	cTc	cCc	1	1	AY.4.2	0.000022
ORF3a	65	L65P	cTc	cCc	1	1	AY.41	0.000294
ORF3a	65	L65P	cTc	cCc	1	1	AY.46.2	0.000635
ORF3a	65	L65P	cTc	cCc	1	1	AY.5	0.000021
ORF3a	65	L65P	cTc	cCc	1	1	AY.55	0.000917
ORF3a	65	L65P	cTc	cCc	1	1	AY.62	0.000436
ORF3a	65	L65P	cTc	cCc	1	1	AY.7.1	0.000113
ORF3a	65	L65P	cTc	cCc	1	1	AY.70	0.000209
ORF3a	65	L65P	cTc	cCc	1	1	AY.80	0.001129
ORF3a	65	L65P	cTc	cCc	1	1	AY.98.1	0.000048
ORF3a	65	L65P	cTc	cCc	1	1	B.1.1.222	0.000204
ORF3a	65	L65P	cTc	cCc	1	1	B.1.1.306	0.000438
ORF3a	65	L65P	cTc	cCc	1	1	B.1.1.318	0.000302
ORF3a	65	L65P	cTc	cCc	1	1	B.1.1.34	0.013158
ORF3a	65	L65P	cTc	cCc	1	1	B.1.1.519	0.00004
ORF3a	65	L65P	cTc	cCc	1	1	B.1.160	0.000031
ORF3a	65	L65P	cTc	cCc	1	1	B.1.177.69	0.001484
ORF3a	65	L65P	cTc	cCc	1	1	B.1.177.81	0.000189
ORF3a	65	L65P	cTc	cCc	1	1	B.1.243	0.00007
ORF3a	65	L65P	cTc	cCc	1	1	B.1.36.29	0.000517
ORF3a	65	L65P	cTc	cCc	1	1	B.1.36.8	0.001
ORF3a	65	L65P	cTc	cCc	1	1	B.1.429	0.000024
ORF3a	65	L65P	cTc	cCc	1	1	B.1.470	0.001404
ORF3a	65	L65P	cTc	cCc	1	1	B.1.617.1	0.000129
ORF3a	65	L65P	cTc	cCc	1	1	P.1.1	0.000318

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.