CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF6 : Mut = I33T

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
ORF6	33	I33T		nonsyn	aTa	aCa	8709	8615	0.989207	27298-27300
ORF6	33	I33T		nonsyn	aTA	aCG	8709	86	0.00987484	27298-27300
ORF6	33	I33T		nonsyn	aTA	aCT	8709	8	0.00091859	27298-27300

Details of the mutation I33T 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
ORF6	33	I33T	aTa	aCa	8615	8709	All	0.001648
ORF6	33	I33T	aTA	aCG	86	8709	All	0.000016
ORF6	33	I33T	aTA	aCT	8	8709	All	0.000002
ORF6	33	I33T	aTa	aCa	3209	3209	B.1.617.1	0.413851
ORF6	33	I33T	aTa	aCa	2350	2357	B.1.1.33	0.989057
ORF6	33	I33T	aTA	aCT	7	2357	B.1.1.33	0.002946
ORF6	33	I33T	aTa	aCa	558	558	N.5	0.985866
ORF6	33	I33T	aTa	aCa	234	234	N.4	0.995745
ORF6	33	I33T	aTa	aCa	232	233	B.1	0.002125
ORF6	33	I33T	aTA	aCG	1	233	B.1	0.000009
ORF6	33	I33T	aTa	aCa	188	188	AY.111	0.034432
ORF6	33	I33T	aTa	aCa	172	172	N.3	1
ORF6	33	I33T	aTa	aCa	170	170	B.1.1	0.003084
ORF6	33	I33T	aTa	aCa	167	167	N.9	0.994048
ORF6	33	I33T	aTa	aCa	166	166	AY.4	0.000258
ORF6	33	I33T	aTa	aCa	138	138	N.6	0.978723
ORF6	33	I33T	aTa	aCa	93	95	B.1.617.2	0.00035
ORF6	33	I33T	aTA	aCG	2	95	B.1.617.2	0.000008
ORF6	33	I33T	aTa	aCa	82	92	B.1.1.7	0.000073
ORF6	33	I33T	aTA	aCG	10	92	B.1.1.7	0.000009
ORF6	33	I33T	aTa	aCa	59	59	N.1	1
ORF6	33	I33T	aTa	aCa	52	52	AY.102	0.001379
ORF6	33	I33T	aTa	aCa	44	48	B.1.2	0.000387
ORF6	33	I33T	aTA	aCG	4	48	B.1.2	0.000035
ORF6	33	I33T	aTa	aCa	45	45	AY.47	0.0014
ORF6	33	I33T	aTa	aCa	40	40	B.1.177.81	0.007573
ORF6	33	I33T	aTa	aCa	34	34	AY.93	0.009285
ORF6	33	I33T	aTa	aCa	34	34	N.10	1
ORF6	33	I33T	aTa	aCa	34	34	N.7	1
ORF6	33	I33T	aTa	aCa	32	32	N.8	1
ORF6	33	I33T	aTa	aCa	28	29	AY.44	0.00017
ORF6	33	I33T	aTA	aCG	1	29	AY.44	0.000006
ORF6	33	I33T	aTa	aCa	26	26	N.2	1
ORF6	33	I33T	aTa	aCa	17	25	AY.103	0.000106
ORF6	33	I33T	aTA	aCG	8	25	AY.103	0.00005
ORF6	33	I33T	aTa	aCa	22	25	AY.119	0.000777
ORF6	33	I33T	aTA	aCG	3	25	AY.119	0.000106
ORF6	33	I33T	aTa	aCa	23	23	AY.27	0.001489
ORF6	33	I33T	aTa	aCa	21	23	AY.43	0.000093
ORF6	33	I33T	aTA	aCG	2	23	AY.43	0.000009
ORF6	33	I33T	aTa	aCa	23	23	AY.54	0.002193
ORF6	33	I33T	aTa	aCa	19	21	AY.39	0.00047
ORF6	33	I33T	aTA	aCG	2	21	AY.39	0.000049
ORF6	33	I33T	aTa	aCa	20	20	AY.4.4	0.008183
ORF6	33	I33T	aTa	aCa	20	20	B.1.170	0.086207
ORF6	33	I33T	aTa	aCa	15	15	AY.75	0.00084
ORF6	33	I33T	aTA	aCG	14	14	AY.6	0.000576
ORF6	33	I33T	aTa	aCa	14	14	B.1.1.128	0.099291
ORF6	33	I33T	aTa	aCa	9	10	AY.25	0.000054
ORF6	33	I33T	aTA	aCG	1	10	AY.25	0.000006
ORF6	33	I33T	aTa	aCa	7	10	AY.3	0.00007
ORF6	33	I33T	aTA	aCG	3	10	AY.3	0.00003
ORF6	33	I33T	aTa	aCa	10	10	B.1.214	0.03663
ORF6	33	I33T	aTa	aCa	10	10	C.8	0.044643
ORF6	33	I33T	aTa	aCa	7	8	B.1.1.28	0.002179
ORF6	33	I33T	aTA	aCG	1	8	B.1.1.28	0.000311
ORF6	33	I33T	aTa	aCa	8	8	B.1.1.393	0.888889
ORF6	33	I33T	aTa	aCa	7	8	B.1.1.519	0.000278
ORF6	33	I33T	aTA	aCG	1	8	B.1.1.519	0.00004
ORF6	33	I33T	aTa	aCa	8	8	B.1.234	0.001056
ORF6	33	I33T	aTa	aCa	7	7	AY.20	0.000272
ORF6	33	I33T	aTa	aCa	7	7	AY.61	0.000733
ORF6	33	I33T	aTA	aCG	7	7	B.1.620	0.006623
ORF6	33	I33T	aTa	aCa	6	6	AY.3.1	0.000512
ORF6	33	I33T	aTa	aCa	6	6	B.1.177	0.000079
ORF6	33	I33T	aTa	aCa	5	5	AY.120	0.000186
ORF6	33	I33T	aTa	aCa	5	5	AY.46	0.00052
ORF6	33	I33T	aTa	aCa	5	5	AY.5	0.000103
ORF6	33	I33T	aTA	aCG	4	5	B.1.351	0.000119
ORF6	33	I33T	aTa	aCa	1	5	B.1.351	0.00003
ORF6	33	I33T	aTa	aCa	4	4	AE.8	0.001956
ORF6	33	I33T	aTa	aCa	4	4	AY.116	0.001147
ORF6	33	I33T	aTa	aCa	4	4	AY.26	0.000113
ORF6	33	I33T	aTa	aCa	4	4	AY.42	0.000161
ORF6	33	I33T	aTa	aCa	4	4	AY.68	0.001095
ORF6	33	I33T	aTa	aCa	4	4	B	0.000511
ORF6	33	I33T	aTa	aCa	4	4	B.1.429	0.000094
ORF6	33	I33T	aTa	aCa	4	4	B.1.487	0.078431
ORF6	33	I33T	aTA	aCG	3	4	P.1	0.000047
ORF6	33	I33T	aTa	aCa	1	4	P.1	0.000016
ORF6	33	I33T	aTa	aCa	2	3	AY.4.2	0.000043
ORF6	33	I33T	aTA	aCT	1	3	AY.4.2	0.000022
ORF6	33	I33T	aTa	aCa	3	3	AY.45	0.000365
ORF6	33	I33T	aTa	aCa	3	3	AY.46.6	0.000217
ORF6	33	I33T	aTa	aCa	3	3	AY.77	0.003382
ORF6	33	I33T	aTa	aCa	3	3	B.1.258	0.0002
ORF6	33	I33T	aTa	aCa	2	3	B.1.526	0.000047
ORF6	33	I33T	aTA	aCG	1	3	B.1.526	0.000024
ORF6	33	I33T	aTa	aCa	3	3	P.1.6	0.005837
ORF6	33	I33T	aTa	aCa	2	3	P.1.7	0.000639
ORF6	33	I33T	aTA	aCG	1	3	P.1.7	0.000319
ORF6	33	I33T	aTa	aCa	2	2	AY.100	0.000092
ORF6	33	I33T	aTa	aCa	2	2	AY.101	0.000981
ORF6	33	I33T	aTA	aCG	2	2	AY.113	0.000285
ORF6	33	I33T	aTa	aCa	2	2	AY.23	0.000139
ORF6	33	I33T	aTa	aCa	1	2	AY.5.3	0.000337
ORF6	33	I33T	aTA	aCG	1	2	AY.5.3	0.000337
ORF6	33	I33T	aTa	aCa	1	2	AY.62	0.000436
ORF6	33	I33T	aTA	aCG	1	2	AY.62	0.000436
ORF6	33	I33T	aTa	aCa	2	2	AY.75.1	0.000361
ORF6	33	I33T	aTa	aCa	2	2	B.1.157	0.00597
ORF6	33	I33T	aTa	aCa	2	2	B.1.243	0.000139
ORF6	33	I33T	aTa	aCa	2	2	B.1.311	0.000549
ORF6	33	I33T	aTA	aCG	1	2	B.1.466.2	0.000391
ORF6	33	I33T	aTa	aCa	1	2	B.1.466.2	0.000391
ORF6	33	I33T	aTa	aCa	2	2	B.1.561	0.000794
ORF6	33	I33T	aTA	aCG	2	2	B.1.596	0.000174
ORF6	33	I33T	aTA	aCG	2	2	C.16	0.002121
ORF6	33	I33T	aTa	aCa	2	2	P.2	0.000373
ORF6	33	I33T	aTa	aCa	2	2	R.1	0.00018
ORF6	33	I33T	aTa	aCa	1	1	A	0.000387
ORF6	33	I33T	aTa	aCa	1	1	A.28	0.002646
ORF6	33	I33T	aTa	aCa	1	1	AY.108	0.001103
ORF6	33	I33T	aTA	aCG	1	1	AY.117	0.000085
ORF6	33	I33T	aTA	aCG	1	1	AY.121	0.000135
ORF6	33	I33T	aTa	aCa	1	1	AY.16	0.00038
ORF6	33	I33T	aTa	aCa	1	1	AY.21	0.001898
ORF6	33	I33T	aTa	aCa	1	1	AY.29	0.000016
ORF6	33	I33T	aTa	aCa	1	1	AY.33	0.000067
ORF6	33	I33T	aTa	aCa	1	1	AY.38	0.000499
ORF6	33	I33T	aTa	aCa	1	1	AY.46.5	0.000198
ORF6	33	I33T	aTa	aCa	1	1	AY.49	0.003195
ORF6	33	I33T	aTa	aCa	1	1	AY.55	0.000917
ORF6	33	I33T	aTa	aCa	1	1	AY.65	0.000533
ORF6	33	I33T	aTa	aCa	1	1	AY.67	0.000464
ORF6	33	I33T	aTA	aCG	1	1	AY.7.1	0.000113
ORF6	33	I33T	aTA	aCG	1	1	AY.88	0.000884
ORF6	33	I33T	aTa	aCa	1	1	AY.9	0.000068
ORF6	33	I33T	aTa	aCa	1	1	AY.9.2	0.000037
ORF6	33	I33T	aTa	aCa	1	1	AY.98	0.000079
ORF6	33	I33T	aTa	aCa	1	1	AY.98.1	0.000048
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.118	0.010204
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.161	0.003534
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.192	0.002309
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.220	0.001859
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.305	0.003861
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.327	0.1
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.332	0.03125
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.356	0.008547
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.409	0.002833
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.434	0.000349
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.56	0.017857
ORF6	33	I33T	aTa	aCa	1	1	B.1.1.70	0.000341
ORF6	33	I33T	aTa	aCa	1	1	B.1.104	0.00369
ORF6	33	I33T	aTa	aCa	1	1	B.1.139	0.000733
ORF6	33	I33T	aTa	aCa	1	1	B.1.177.12	0.000152
ORF6	33	I33T	aTa	aCa	1	1	B.1.177.33	0.001645
ORF6	33	I33T	aTA	aCG	1	1	B.1.177.7	0.000165
ORF6	33	I33T	aTa	aCa	1	1	B.1.201	0.005682
ORF6	33	I33T	aTa	aCa	1	1	B.1.349	0.000715
ORF6	33	I33T	aTA	aCG	1	1	B.1.36	0.000146
ORF6	33	I33T	aTa	aCa	1	1	B.1.36.10	0.004785
ORF6	33	I33T	aTa	aCa	1	1	B.1.361	0.001289
ORF6	33	I33T	aTa	aCa	1	1	B.1.399	0.001934
ORF6	33	I33T	aTa	aCa	1	1	B.1.416.1	0.001563
ORF6	33	I33T	aTa	aCa	1	1	B.1.459	0.004082
ORF6	33	I33T	aTa	aCa	1	1	B.1.462	0.007246
ORF6	33	I33T	aTa	aCa	1	1	B.1.479	0.038462
ORF6	33	I33T	aTa	aCa	1	1	B.1.575	0.000303
ORF6	33	I33T	aTa	aCa	1	1	B.1.594	0.03125
ORF6	33	I33T	aTa	aCa	1	1	B.1.621	0.000089
ORF6	33	I33T	aTA	aCG	1	1	B.1.637	0.000073
ORF6	33	I33T	aTa	aCa	1	1	B.1.91	0.002075
ORF6	33	I33T	aTa	aCa	1	1	C.1.2	0.004255
ORF6	33	I33T	aTa	aCa	1	1	C.11	0.010638
ORF6	33	I33T	aTA	aCG	1	1	C.37	0.000116
ORF6	33	I33T	aTa	aCa	1	1	Q.8	0.000165

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.