CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 42 & 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	42	P42P		syn	ccT	ccC	4974	4683	0.941496	25516-25518

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	42	P42P	ccT	ccC	4683	4974	All	0.000896
ORF3a	42	P42P	ccT	ccC	2738	2742	B.1.617.2	0.01031
ORF3a	42	P42P	ccT	ccC	785	785	AY.102	0.020813
ORF3a	42	P42P	ccT	ccC	232	242	B.1.1.7	0.000208
ORF3a	42	P42P	ccT	ccC	71	131	AY.44	0.000432
ORF3a	42	P42P	ccT	ccC	124	124	AY.39	0.003064
ORF3a	42	P42P	ccT	ccC	99	102	AY.43	0.000439
ORF3a	42	P42P	ccT	ccC	59	59	AY.106	0.019759
ORF3a	42	P42P	ccT	ccC	58	58	AY.117	0.004902
ORF3a	42	P42P	ccT	ccC	58	58	AY.34.1	0.029577
ORF3a	42	P42P	ccT	ccC	5	57	B.1	0.000046
ORF3a	42	P42P	ccT	ccC	12	49	AY.4	0.000019
ORF3a	42	P42P	ccT	ccC	35	35	B.1.258.11	0.013872
ORF3a	42	P42P	ccT	ccC	32	32	B.1.177	0.000421
ORF3a	42	P42P	ccT	ccC	23	23	AY.120	0.000855
ORF3a	42	P42P	ccT	ccC	17	20	AY.103	0.000106
ORF3a	42	P42P	ccT	ccC	4	19	AY.25	0.000024
ORF3a	42	P42P	ccT	ccC	17	17	AY.46	0.001769
ORF3a	42	P42P	ccT	ccC	16	16	AY.59	0.008475
ORF3a	42	P42P	ccT	ccC	15	15	AY.77	0.016911
ORF3a	42	P42P	ccT	ccC	14	14	AY.45	0.001704
ORF3a	42	P42P	ccT	ccC	14	14	AY.73	0.009315
ORF3a	42	P42P	ccT	ccC	13	14	B.1.2	0.000114
ORF3a	42	P42P	ccT	ccC	13	13	AY.23	0.000907
ORF3a	42	P42P	ccT	ccC	13	13	AY.33	0.000868
ORF3a	42	P42P	ccT	ccC	12	12	AY.111	0.002198
ORF3a	42	P42P	ccT	ccC	12	12	AY.116	0.003441
ORF3a	42	P42P	ccT	ccC	11	11	AY.98	0.000869
ORF3a	42	P42P	ccT	ccC	10	10	AY.5	0.000206
ORF3a	42	P42P	ccT	ccC	8	8	AY.120.1	0.002568
ORF3a	42	P42P	ccT	ccC	8	8	AY.6	0.000329
ORF3a	42	P42P	ccT	ccC	7	7	AY.84	0.003062
ORF3a	42	P42P	ccT	ccC	7	7	B.1.177.75	0.007284
ORF3a	42	P42P	ccT	ccC	6	6	B.1.1.222	0.001224
ORF3a	42	P42P	ccT	ccC	5	5	AY.46.4	0.000823
ORF3a	42	P42P	ccT	ccC	5	5	AY.53	0.001438
ORF3a	42	P42P	ccT	ccC	3	5	B.1.1	0.000054
ORF3a	42	P42P	ccT	ccC	4	4	AY.118	0.000251
ORF3a	42	P42P	ccT	ccC	4	4	AY.119	0.000141
ORF3a	42	P42P	ccT	ccC	4	4	AY.36	0.000593
ORF3a	42	P42P	ccT	ccC	4	4	B.1.221	0.000284
ORF3a	42	P42P	ccT	ccC	4	4	B.1.617.1	0.000516
ORF3a	42	P42P	ccT	ccC	3	3	AY.110	0.000338
ORF3a	42	P42P	ccT	ccC	3	3	AY.4.5	0.000322
ORF3a	42	P42P	ccT	ccC	3	3	AY.41	0.000882
ORF3a	42	P42P	ccT	ccC	3	3	AY.5.4	0.00083
ORF3a	42	P42P	ccT	ccC	2	3	AY.74	0.000231
ORF3a	42	P42P	ccT	ccC	3	3	AY.87	0.002498
ORF3a	42	P42P	ccT	ccC	3	3	AY.9.2	0.00011
ORF3a	42	P42P	ccT	ccC	3	3	AY.93	0.000819
ORF3a	42	P42P	ccT	ccC	3	3	B.1.1.115	0.026786
ORF3a	42	P42P	ccT	ccC	3	3	P.1	0.000047
ORF3a	42	P42P	ccT	ccC	1	3	P.2	0.000187
ORF3a	42	P42P	ccT	ccC	3	3	Q.8	0.000495
ORF3a	42	P42P	ccT	ccC	2	2	AY.1	0.000791
ORF3a	42	P42P	ccT	ccC	2	2	AY.105	0.001286
ORF3a	42	P42P	ccT	ccC	2	2	AY.121	0.000271
ORF3a	42	P42P	ccT	ccC	1	2	AY.27	0.000065
ORF3a	42	P42P	ccT	ccC	2	2	AY.34	0.000194
ORF3a	42	P42P	ccT	ccC	2	2	AY.46.1	0.002053
ORF3a	42	P42P	ccT	ccC	2	2	AY.5.3	0.000675
ORF3a	42	P42P	ccT	ccC	2	2	AY.68	0.000547
ORF3a	42	P42P	ccT	ccC	2	2	AY.70	0.000417
ORF3a	42	P42P	ccT	ccC	2	2	AY.75	0.000112
ORF3a	42	P42P	ccT	ccC	2	2	AY.75.1	0.000361
ORF3a	42	P42P	ccT	ccC	2	2	AY.78	0.003082
ORF3a	42	P42P	ccT	ccC	2	2	AY.96	0.004149
ORF3a	42	P42P	ccT	ccC	2	2	B.1.1.288	0.003831
ORF3a	42	P42P	ccT	ccC	2	2	B.1.177.21	0.000153
ORF3a	42	P42P	ccT	ccC	2	2	B.1.177.41	0.005
ORF3a	42	P42P	ccT	ccC	2	2	B.1.351	0.000059
ORF3a	42	P42P	ccT	ccC	1	1	A.27	0.001656
ORF3a	42	P42P	ccT	ccC	1	1	AY.100	0.000046
ORF3a	42	P42P	ccT	ccC	1	1	AY.114	0.000231
ORF3a	42	P42P	ccT	ccC	1	1	AY.16	0.00038
ORF3a	42	P42P	ccT	ccC	1	1	AY.19	0.00114
ORF3a	42	P42P	ccT	ccC	1	1	AY.26	0.000028
ORF3a	42	P42P	ccT	ccC	1	1	AY.29	0.000016
ORF3a	42	P42P	ccT	ccC	1	1	AY.42	0.00004
ORF3a	42	P42P	ccT	ccC	1	1	AY.46.2	0.000635
ORF3a	42	P42P	ccT	ccC	1	1	AY.46.6	0.000072
ORF3a	42	P42P	ccT	ccC	1	1	AY.48	0.000465
ORF3a	42	P42P	ccT	ccC	1	1	AY.49	0.003195
ORF3a	42	P42P	ccT	ccC	1	1	AY.50	0.000799
ORF3a	42	P42P	ccT	ccC	1	1	AY.55	0.000917
ORF3a	42	P42P	ccT	ccC	1	1	AY.57	0.000656
ORF3a	42	P42P	ccT	ccC	1	1	AY.58	0.000907
ORF3a	42	P42P	ccT	ccC	1	1	AY.61	0.000105
ORF3a	42	P42P	ccT	ccC	1	1	AY.67	0.000464
ORF3a	42	P42P	ccT	ccC	1	1	AY.71	0.000475
ORF3a	42	P42P	ccT	ccC	1	1	AY.89	0.004902
ORF3a	42	P42P	ccT	ccC	1	1	AY.92	0.000287
ORF3a	42	P42P	ccT	ccC	1	1	AY.99	0.001049
ORF3a	42	P42P	ccT	ccC	1	1	B.1.1.192	0.002309
ORF3a	42	P42P	ccT	ccC	1	1	B.1.1.355	0.015385
ORF3a	42	P42P	ccT	ccC	1	1	B.1.1.369	0.000446
ORF3a	42	P42P	ccT	ccC	1	1	B.1.1.371	0.010417
ORF3a	42	P42P	ccT	ccC	1	1	B.1.1.388	0.045455
ORF3a	42	P42P	ccT	ccC	1	1	B.1.1.39	0.00051
ORF3a	42	P42P	ccT	ccC	1	1	B.1.160	0.000031
ORF3a	42	P42P	ccT	ccC	1	1	B.1.177.81	0.000189
ORF3a	42	P42P	ccT	ccC	1	1	B.1.210	0.002132
ORF3a	42	P42P	ccT	ccC	1	1	B.1.36.39	0.002217
ORF3a	42	P42P	ccT	ccC	1	1	B.1.367	0.000792
ORF3a	42	P42P	ccT	ccC	1	1	B.1.596	0.000087
ORF3a	42	P42P	ccT	ccC	1	1	C.2.1	0.006667
ORF3a	42	P42P	ccT	ccC	1	1	C.37	0.000116

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.