CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : Mut = A174V

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/nsp2	174	A174V	A354V	nonsyn	gCc	gTc	1524	1501	0.984908	1325-1327
ORF1ab/nsp2	174	A174V	A354V	nonsyn	gCC	gTG	1524	20	0.0131234	1325-1327
ORF1ab/nsp2	174	A174V	A354V	nonsyn	gCC	gTT	1524	3	0.0019685	1325-1327

Details of the mutation A174V 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/nsp2	174	A174V	gCc	gTc	1501	1524	All	0.000287
ORF1ab/nsp2	174	A174V	gCC	gTG	20	1524	All	0.000004
ORF1ab/nsp2	174	A174V	gCC	gTT	3	1524	All	0.000001
ORF1ab/nsp2	174	A174V	gCc	gTc	263	266	B.1.1.7	0.000235
ORF1ab/nsp2	174	A174V	gCC	gTG	3	266	B.1.1.7	0.000003
ORF1ab/nsp2	174	A174V	gCc	gTc	207	207	AY.4	0.000322
ORF1ab/nsp2	174	A174V	gCc	gTc	143	144	AY.44	0.00087
ORF1ab/nsp2	174	A174V	gCC	gTG	1	144	AY.44	0.000006
ORF1ab/nsp2	174	A174V	gCc	gTc	137	137	B.1.617.2	0.000516
ORF1ab/nsp2	174	A174V	gCc	gTc	113	113	B.1.541	0.5
ORF1ab/nsp2	174	A174V	gCc	gTc	63	63	AY.43	0.000279
ORF1ab/nsp2	174	A174V	gCc	gTc	45	54	AY.25	0.000271
ORF1ab/nsp2	174	A174V	gCC	gTG	9	54	AY.25	0.000054
ORF1ab/nsp2	174	A174V	gCc	gTc	51	51	B.1.1.467	0.980769
ORF1ab/nsp2	174	A174V	gCc	gTc	48	50	AY.3	0.000477
ORF1ab/nsp2	174	A174V	gCC	gTG	1	50	AY.3	0.00001
ORF1ab/nsp2	174	A174V	gCC	gTT	1	50	AY.3	0.00001
ORF1ab/nsp2	174	A174V	gCc	gTc	44	44	B.1.36	0.00642
ORF1ab/nsp2	174	A174V	gCc	gTc	32	32	AY.39	0.000791
ORF1ab/nsp2	174	A174V	gCc	gTc	22	22	B.1.36.17	0.01087
ORF1ab/nsp2	174	A174V	gCc	gTc	21	21	B.1.2	0.000185
ORF1ab/nsp2	174	A174V	gCc	gTc	16	18	AY.103	0.000099
ORF1ab/nsp2	174	A174V	gCC	gTG	2	18	AY.103	0.000012
ORF1ab/nsp2	174	A174V	gCc	gTc	17	17	B.1.1	0.000308
ORF1ab/nsp2	174	A174V	gCc	gTc	16	16	B.1	0.000147
ORF1ab/nsp2	174	A174V	gCc	gTc	14	14	B.1.1.519	0.000556
ORF1ab/nsp2	174	A174V	gCc	gTc	8	10	AY.100	0.000368
ORF1ab/nsp2	174	A174V	gCC	gTT	1	10	AY.100	0.000046
ORF1ab/nsp2	174	A174V	gCC	gTG	1	10	AY.100	0.000046
ORF1ab/nsp2	174	A174V	gCc	gTc	10	10	B.1.1.207	0.01182
ORF1ab/nsp2	174	A174V	gCc	gTc	9	9	AY.102	0.000239
ORF1ab/nsp2	174	A174V	gCc	gTc	9	9	B.1.258	0.000599
ORF1ab/nsp2	174	A174V	gCc	gTc	8	8	AY.29	0.000126
ORF1ab/nsp2	174	A174V	gCc	gTc	8	8	B.1.221	0.000568
ORF1ab/nsp2	174	A174V	gCc	gTc	7	8	P.1	0.00011
ORF1ab/nsp2	174	A174V	gCC	gTG	1	8	P.1	0.000016
ORF1ab/nsp2	174	A174V	gCc	gTc	4	6	AY.26	0.000113
ORF1ab/nsp2	174	A174V	gCC	gTG	2	6	AY.26	0.000057
ORF1ab/nsp2	174	A174V	gCc	gTc	6	6	AY.33	0.000401
ORF1ab/nsp2	174	A174V	gCc	gTc	6	6	B.1.429	0.000141
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	AY.119	0.000177
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	AY.19	0.005701
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	AY.4.2	0.000108
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	AY.47	0.000156
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	AY.6	0.000206
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	B.1.1.218	0.038462
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	B.1.1.28	0.001556
ORF1ab/nsp2	174	A174V	gCc	gTc	5	5	C.37	0.00058
ORF1ab/nsp2	174	A174V	gCc	gTc	4	4	AY.27	0.000259
ORF1ab/nsp2	174	A174V	gCc	gTc	4	4	AY.4.5	0.00043
ORF1ab/nsp2	174	A174V	gCc	gTc	4	4	AY.75	0.000224
ORF1ab/nsp2	174	A174V	gCc	gTc	4	4	B.1.409	0.003125
ORF1ab/nsp2	174	A174V	gCc	gTc	4	4	B.1.621	0.000354
ORF1ab/nsp2	174	A174V	gCc	gTc	3	3	A.1	0.000846
ORF1ab/nsp2	174	A174V	gCc	gTc	3	3	AY.118	0.000188
ORF1ab/nsp2	174	A174V	gCc	gTc	3	3	AY.35	0.000699
ORF1ab/nsp2	174	A174V	gCc	gTc	3	3	AY.5	0.000062
ORF1ab/nsp2	174	A174V	gCc	gTc	3	3	AY.68	0.000821
ORF1ab/nsp2	174	A174V	gCc	gTc	3	3	AY.98	0.000237
ORF1ab/nsp2	174	A174V	gCc	gTc	3	3	B.1.177.46	0.002755
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	A.23.1	0.001408
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.120	0.000074
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.120.1	0.000642
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.16	0.000759
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.23	0.000139
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.32	0.001065
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.45	0.000243
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.46.4	0.000329
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.54	0.000191
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.88	0.001768
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.91	0.001461
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	AY.98.1	0.000097
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.1.216	0.001781
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.1.316	0.00185
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.1.318	0.000604
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.234	0.000264
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.427	0.000101
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.525	0.000226
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.526	0.000047
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	B.1.621.1	0.001012
ORF1ab/nsp2	174	A174V	gCc	gTc	1	2	B.1.630	0.005236
ORF1ab/nsp2	174	A174V	gCC	gTT	1	2	B.1.630	0.005236
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	P.1.14	0.000096
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	P.1.2	0.002312
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	Q.8	0.00033
ORF1ab/nsp2	174	A174V	gCc	gTc	2	2	R.1	0.00018
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	A.2.5	0.000499
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.104	0.001984
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.113	0.000142
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.114	0.000231
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.117	0.000085
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.13	0.000161
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.16.1	0.00047
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.20	0.000039
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.34	0.000097
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.37	0.000316
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.42	0.00004
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.5.3	0.000337
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.5.4	0.000277
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.60	0.000938
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.70	0.000209
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.79	0.001211
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.81	0.001992
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	AY.9	0.000068
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.1.176	0.000439
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.1.349	0.010309
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.110.3	0.000718
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.177	0.000013
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.177.11	0.001698
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.177.17	0.000821
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.177.4	0.000211
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.177.58	0.001332
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.177.86	0.000183
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.214.3	0.007143
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.221.4	0.004167
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.311	0.000275
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.351	0.00003
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.416	0.001269
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.420	0.010417
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.469	0.00361
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.588	0.00091
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.596	0.000087
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.1.617.1	0.000129
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	B.28	0.003279
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	C.36.3	0.000567
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	P.1.16	0.000374
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	P.1.17	0.000162
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	P.1.4	0.000977
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	P.2	0.000187
ORF1ab/nsp2	174	A174V	gCc	gTc	1	1	Q.1	0.000126

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.