CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = I1239T

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF1ab/nsp31239I1239TI2057TnonsynaTaaCa61061016434-6436

Details of the mutation I1239T within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31239I1239TaTaaCa610610All0.000117
ORF1ab/nsp31239I1239TaTaaCa116116AY.40.000181
ORF1ab/nsp31239I1239TaTaaCa108108B.1.1.70.000097
ORF1ab/nsp31239I1239TaTaaCa5656B.1.110.30.04023
ORF1ab/nsp31239I1239TaTaaCa4848B.1.617.20.000181
ORF1ab/nsp31239I1239TaTaaCa3535B.1.1600.001092
ORF1ab/nsp31239I1239TaTaaCa3030B.1.1.3550.461538
ORF1ab/nsp31239I1239TaTaaCa1616AY.98.10.000775
ORF1ab/nsp31239I1239TaTaaCa1414B.10.000128
ORF1ab/nsp31239I1239TaTaaCa1313AY.1030.000081
ORF1ab/nsp31239I1239TaTaaCa1212B.1.5311
ORF1ab/nsp31239I1239TaTaaCa99AY.290.000142
ORF1ab/nsp31239I1239TaTaaCa99B.1.1.3260.015845
ORF1ab/nsp31239I1239TaTaaCa77AY.430.000031
ORF1ab/nsp31239I1239TaTaaCa77B.1.4270.000353
ORF1ab/nsp31239I1239TaTaaCa77B.1.5370.14
ORF1ab/nsp31239I1239TaTaaCa55AY.1000.00023
ORF1ab/nsp31239I1239TaTaaCa55AY.1020.000133
ORF1ab/nsp31239I1239TaTaaCa44AY.250.000024
ORF1ab/nsp31239I1239TaTaaCa44AY.46.40.000658
ORF1ab/nsp31239I1239TaTaaCa44AY.580.00363
ORF1ab/nsp31239I1239TaTaaCa44AY.830.006897
ORF1ab/nsp31239I1239TaTaaCa44B.1.1.5160.266667
ORF1ab/nsp31239I1239TaTaaCa44B.1.20.000035
ORF1ab/nsp31239I1239TaTaaCa44B.1.5260.000094
ORF1ab/nsp31239I1239TaTaaCa44B.1.5950.001044
ORF1ab/nsp31239I1239TaTaaCa33A0.001161
ORF1ab/nsp31239I1239TaTaaCa33AY.1180.000188
ORF1ab/nsp31239I1239TaTaaCa33AY.1210.000406
ORF1ab/nsp31239I1239TaTaaCa33AY.200.000117
ORF1ab/nsp31239I1239TaTaaCa33AY.440.000018
ORF1ab/nsp31239I1239TaTaaCa33AY.530.000863
ORF1ab/nsp31239I1239TaTaaCa33AY.570.001969
ORF1ab/nsp31239I1239TaTaaCa33AY.610.000314
ORF1ab/nsp31239I1239TaTaaCa33P.10.000047
ORF1ab/nsp31239I1239TaTaaCa22AY.1200.000074
ORF1ab/nsp31239I1239TaTaaCa22AY.230.000139
ORF1ab/nsp31239I1239TaTaaCa22AY.4.20.000043
ORF1ab/nsp31239I1239TaTaaCa22AY.46.30.001867
ORF1ab/nsp31239I1239TaTaaCa22B.1.1.2840.000215
ORF1ab/nsp31239I1239TaTaaCa22B.1.1.3180.000604
ORF1ab/nsp31239I1239TaTaaCa22B.1.2580.000133
ORF1ab/nsp31239I1239TaTaaCa22B.1.258.110.000793
ORF1ab/nsp31239I1239TaTaaCa22B.1.3050.004301
ORF1ab/nsp31239I1239TaTaaCa22B.1.36.220.002415
ORF1ab/nsp31239I1239TaTaaCa22C.36.30.001134
ORF1ab/nsp31239I1239TaTaaCa11AD.20.000219
ORF1ab/nsp31239I1239TaTaaCa11AY.1160.000287
ORF1ab/nsp31239I1239TaTaaCa11AY.116.10.000311
ORF1ab/nsp31239I1239TaTaaCa11AY.140.000088
ORF1ab/nsp31239I1239TaTaaCa11AY.30.00001
ORF1ab/nsp31239I1239TaTaaCa11AY.320.000532
ORF1ab/nsp31239I1239TaTaaCa11AY.34.10.00051
ORF1ab/nsp31239I1239TaTaaCa11AY.360.000148
ORF1ab/nsp31239I1239TaTaaCa11AY.390.000025
ORF1ab/nsp31239I1239TaTaaCa11AY.50.000021
ORF1ab/nsp31239I1239TaTaaCa11AY.60.000041
ORF1ab/nsp31239I1239TaTaaCa11AY.600.000938
ORF1ab/nsp31239I1239TaTaaCa11AY.980.000079
ORF1ab/nsp31239I1239TaTaaCa11B.1.1.280.000311
ORF1ab/nsp31239I1239TaTaaCa11B.1.1.3510.002793
ORF1ab/nsp31239I1239TaTaaCa11B.1.1.4070.041667
ORF1ab/nsp31239I1239TaTaaCa11B.1.1.4090.002833
ORF1ab/nsp31239I1239TaTaaCa11B.1.1770.000013
ORF1ab/nsp31239I1239TaTaaCa11B.1.177.210.000076
ORF1ab/nsp31239I1239TaTaaCa11B.1.2210.000071
ORF1ab/nsp31239I1239TaTaaCa11B.1.2390.001221
ORF1ab/nsp31239I1239TaTaaCa11B.1.2430.00007
ORF1ab/nsp31239I1239TaTaaCa11B.1.36.160.001425
ORF1ab/nsp31239I1239TaTaaCa11B.1.3960.000706
ORF1ab/nsp31239I1239TaTaaCa11B.1.4290.000024
ORF1ab/nsp31239I1239TaTaaCa11B.1.4920.007042
ORF1ab/nsp31239I1239TaTaaCa11B.1.5240.001406
ORF1ab/nsp31239I1239TaTaaCa11B.1.5640.000426
ORF1ab/nsp31239I1239TaTaaCa11D.20.000075
ORF1ab/nsp31239I1239TaTaaCa11N.50.001767
ORF1ab/nsp31239I1239TaTaaCa11P.1.10.000318
ORF1ab/nsp31239I1239TaTaaCa11P.1.40.000977

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

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