CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = A1179A

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/nsp31179A1179AA1997AsyngcAgcG5603060.5464296254-6256
ORF1ab/nsp31179A1179AA1997AsyngcAgcT5602330.4160716254-6256
ORF1ab/nsp31179A1179AA1997AsyngcAgcC560210.03756254-6256

Details of the mutation A1179A within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31179A1179AgcAgcG306560All0.000059
ORF1ab/nsp31179A1179AgcAgcT233560All0.000045
ORF1ab/nsp31179A1179AgcAgcC21560All0.000004
ORF1ab/nsp31179A1179AgcAgcT119226AY.40.000185
ORF1ab/nsp31179A1179AgcAgcG106226AY.40.000165
ORF1ab/nsp31179A1179AgcAgcC1226AY.40.000002
ORF1ab/nsp31179A1179AgcAgcG9696AY.46.60.006932
ORF1ab/nsp31179A1179AgcAgcG2940B.1.1.70.000026
ORF1ab/nsp31179A1179AgcAgcT1040B.1.1.70.000009
ORF1ab/nsp31179A1179AgcAgcC140B.1.1.70.000001
ORF1ab/nsp31179A1179AgcAgcT2932AY.440.000177
ORF1ab/nsp31179A1179AgcAgcC332AY.440.000018
ORF1ab/nsp31179A1179AgcAgcT1525B.1.617.20.000056
ORF1ab/nsp31179A1179AgcAgcG1025B.1.617.20.000038
ORF1ab/nsp31179A1179AgcAgcT1414AY.4.2.10.002086
ORF1ab/nsp31179A1179AgcAgcT1414AY.460.001457
ORF1ab/nsp31179A1179AgcAgcG1111AY.1110.002015
ORF1ab/nsp31179A1179AgcAgcT1010AY.420.000402
ORF1ab/nsp31179A1179AgcAgcG910B.1.1770.000119
ORF1ab/nsp31179A1179AgcAgcT110B.1.1770.000013
ORF1ab/nsp31179A1179AgcAgcG99B.1.360.001313
ORF1ab/nsp31179A1179AgcAgcG88AY.250.000048
ORF1ab/nsp31179A1179AgcAgcG78AY.30.00007
ORF1ab/nsp31179A1179AgcAgcT18AY.30.00001
ORF1ab/nsp31179A1179AgcAgcC66AY.1180.000376
ORF1ab/nsp31179A1179AgcAgcT66B.1.177.820.002864
ORF1ab/nsp31179A1179AgcAgcG55AY.290.000079
ORF1ab/nsp31179A1179AgcAgcC45B.1.20.000035
ORF1ab/nsp31179A1179AgcAgcG15B.1.20.000009
ORF1ab/nsp31179A1179AgcAgcG44AY.390.000099
ORF1ab/nsp31179A1179AgcAgcT24B.10.000018
ORF1ab/nsp31179A1179AgcAgcG24B.10.000018
ORF1ab/nsp31179A1179AgcAgcG22AY.1010.000981
ORF1ab/nsp31179A1179AgcAgcC22AY.430.000009
ORF1ab/nsp31179A1179AgcAgcT22B.1.10.000036
ORF1ab/nsp31179A1179AgcAgcT11AY.1000.000046
ORF1ab/nsp31179A1179AgcAgcG11AY.1020.000027
ORF1ab/nsp31179A1179AgcAgcG11AY.1030.000006
ORF1ab/nsp31179A1179AgcAgcC11AY.120.000316
ORF1ab/nsp31179A1179AgcAgcG11AY.1200.000037
ORF1ab/nsp31179A1179AgcAgcT11AY.300.000396
ORF1ab/nsp31179A1179AgcAgcG11AY.330.000067
ORF1ab/nsp31179A1179AgcAgcC11AY.530.000288
ORF1ab/nsp31179A1179AgcAgcT11AY.98.10.000048
ORF1ab/nsp31179A1179AgcAgcT11B.1.1.330.000421
ORF1ab/nsp31179A1179AgcAgcT11B.1.1.3360.016667
ORF1ab/nsp31179A1179AgcAgcT11B.1.177.170.000821
ORF1ab/nsp31179A1179AgcAgcG11B.1.177.740.015152
ORF1ab/nsp31179A1179AgcAgcT11B.1.177.810.000189
ORF1ab/nsp31179A1179AgcAgcT11B.1.177.90.001332
ORF1ab/nsp31179A1179AgcAgcT11B.1.2580.000067
ORF1ab/nsp31179A1179AgcAgcC11B.1.3110.000275
ORF1ab/nsp31179A1179AgcAgcC11B.1.4660.023256
ORF1ab/nsp31179A1179AgcAgcG11B.1.5260.000024
ORF1ab/nsp31179A1179AgcAgcT11B.1.6210.000089
ORF1ab/nsp31179A1179AgcAgcG11C.120.007194

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.