CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1503

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/nsp31503F1503FF2321FsynttTttC15215217226-7228
ORF1ab/nsp31503F1503LF2321LnonsynTttCtt128570.4453127226-7228
ORF1ab/nsp31503F1503LF2321LnonsynttTttA128570.4453127226-7228
ORF1ab/nsp31503F1503LF2321LnonsynttTttG128130.1015627226-7228
ORF1ab/nsp31503F1503LF2321LnonsynTtTCtC12810.00781257226-7228
ORF1ab/nsp31503F1503delF2321deldelTTT---898917226-7228
ORF1ab/nsp31503F1503CF2321CnonsyntTttGt323217226-7228
ORF1ab/nsp31503F1503IF2321InonsynTttAtt252517226-7228
ORF1ab/nsp31503F1503YF2321YnonsyntTttAt18160.8888897226-7228
ORF1ab/nsp31503F1503YF2321YnonsyntTTtAC1820.1111117226-7228
ORF1ab/nsp31503F1503VF2321VnonsynTttGtt161617226-7228
ORF1ab/nsp31503F1503SF2321SnonsyntTttCt131317226-7228
ORF1ab/nsp31503F1503HF2321HnonsynTTtCAt7717226-7228
ORF1ab/nsp31503F1503del1F2321del1delTtt-tt640.6666677226-7228
ORF1ab/nsp31503F1503del1F2321del1delttTtt-620.3333337226-7228
ORF1ab/nsp31503F1503PF2321PnonsynTTtCCt2217226-7228
ORF1ab/nsp31503F1503AF2321AnonsynTTtGCt1117226-7228
ORF1ab/nsp31503F1503RF2321RnonsynTTtCGt1117226-7228

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31503F1503FttTttC152152All0.000029
ORF1ab/nsp31503F1503LTttCtt57128All0.000011
ORF1ab/nsp31503F1503LttTttA57128All0.000011
ORF1ab/nsp31503F1503LttTttG13128All0.000002
ORF1ab/nsp31503F1503LTtTCtC1128All0
ORF1ab/nsp31503F1503delTTT---8989All0.000017
ORF1ab/nsp31503F1503FttTttC5555B.1.1.70.000049
ORF1ab/nsp31503F1503CtTttGt3232All0.000006
ORF1ab/nsp31503F1503LttTttA1327B.1.1.70.000012
ORF1ab/nsp31503F1503LTttCtt927B.1.1.70.000008
ORF1ab/nsp31503F1503LttTttG427B.1.1.70.000004
ORF1ab/nsp31503F1503LTtTCtC127B.1.1.70.000001
ORF1ab/nsp31503F1503ITttAtt2525All0.000005
ORF1ab/nsp31503F1503delTTT---2020B.1.1.70.000018
ORF1ab/nsp31503F1503YtTttAt1618All0.000003
ORF1ab/nsp31503F1503YtTTtAC218All0
ORF1ab/nsp31503F1503CtTttGt1717B.1.1.4340.005925
ORF1ab/nsp31503F1503LTttCtt1717B.1.3510.000505
ORF1ab/nsp31503F1503VTttGtt1616All0.000003
ORF1ab/nsp31503F1503FttTttC1515AY.30.000149
ORF1ab/nsp31503F1503LttTttA1214B.10.00011
ORF1ab/nsp31503F1503LTttCtt114B.10.000009
ORF1ab/nsp31503F1503LttTttG114B.10.000009
ORF1ab/nsp31503F1503StTttCt1313All0.000002
ORF1ab/nsp31503F1503ITttAtt1212AE.71
ORF1ab/nsp31503F1503YtTttAt1212AY.440.000073
ORF1ab/nsp31503F1503CtTttGt1111B.1.1770.000145
ORF1ab/nsp31503F1503FttTttC1010AY.1030.000062
ORF1ab/nsp31503F1503FttTttC1010AY.250.00006
ORF1ab/nsp31503F1503LTttCtt99B.1.3180.346154
ORF1ab/nsp31503F1503delTTT---88B.10.000073
ORF1ab/nsp31503F1503HTTtCAt77All0.000001
ORF1ab/nsp31503F1503HTTtCAt77B.1.1770.000092
ORF1ab/nsp31503F1503FttTttC77P.10.00011
ORF1ab/nsp31503F1503del1Ttt-tt46All0.000001
ORF1ab/nsp31503F1503del1ttTtt-26All0
ORF1ab/nsp31503F1503FttTttC66AY.1190.000212
ORF1ab/nsp31503F1503FttTttC55AY.440.00003
ORF1ab/nsp31503F1503StTttCt55B.1.1.70.000004
ORF1ab/nsp31503F1503ITttAtt55B.1.1.70.000004
ORF1ab/nsp31503F1503VTttGtt55B.1.177.40.001055
ORF1ab/nsp31503F1503delTTT---440.222222
ORF1ab/nsp31503F1503LTttCtt34AY.40.000005
ORF1ab/nsp31503F1503LttTttA14AY.40.000002
ORF1ab/nsp31503F1503delTTT---44AY.430.000018
ORF1ab/nsp31503F1503FttTttC44B.10.000037
ORF1ab/nsp31503F1503LttTttA24B.1.10.000036
ORF1ab/nsp31503F1503LttTttG14B.1.10.000018
ORF1ab/nsp31503F1503LTttCtt14B.1.10.000018
ORF1ab/nsp31503F1503LttTttA44B.1.1.3480.003185
ORF1ab/nsp31503F1503FttTttC44B.1.2010.022727
ORF1ab/nsp31503F1503FttTttC44B.1.4290.000094
ORF1ab/nsp31503F1503FttTttC44B.1.617.20.000015
ORF1ab/nsp31503F1503StTttCt33AY.40.000005
ORF1ab/nsp31503F1503FttTttC33AY.40.000005
ORF1ab/nsp31503F1503delTTT---33B.1.1.2180.023077
ORF1ab/nsp31503F1503LttTttA33B.1.1110.003525
ORF1ab/nsp31503F1503delTTT---33B.1.1770.00004
ORF1ab/nsp31503F1503LttTttA23B.1.20.000018
ORF1ab/nsp31503F1503LttTttG13B.1.20.000009
ORF1ab/nsp31503F1503VTttGtt33B.1.3510.000089
ORF1ab/nsp31503F1503delTTT---33B.1.4110.011111
ORF1ab/nsp31503F1503LTttCtt23B.1.617.20.000008
ORF1ab/nsp31503F1503LttTttA13B.1.617.20.000004
ORF1ab/nsp31503F1503ITttAtt33C.370.000348
ORF1ab/nsp31503F1503LttTttA33P.10.000047
ORF1ab/nsp31503F1503FttTttC220.111111
ORF1ab/nsp31503F1503PTTtCCt22All0
ORF1ab/nsp31503F1503LttTttA22AY.1030.000012
ORF1ab/nsp31503F1503FttTttC22AY.140.000176
ORF1ab/nsp31503F1503delTTT---22AY.250.000012
ORF1ab/nsp31503F1503LttTttA12AY.30.00001
ORF1ab/nsp31503F1503LttTttG12AY.30.00001
ORF1ab/nsp31503F1503FttTttC22AY.39.10.000079
ORF1ab/nsp31503F1503delTTT---22AY.40.000003
ORF1ab/nsp31503F1503delTTT---22AY.4.50.000215
ORF1ab/nsp31503F1503FttTttC22AY.430.000009
ORF1ab/nsp31503F1503LTttCtt22AY.50.000041
ORF1ab/nsp31503F1503del1ttTtt-22B.1.1.70.000002
ORF1ab/nsp31503F1503LttTttA12B.1.1770.000013
ORF1ab/nsp31503F1503LTttCtt12B.1.1770.000013
ORF1ab/nsp31503F1503delTTT---22B.1.177.620.002384
ORF1ab/nsp31503F1503LTttCtt22B.1.2210.000142
ORF1ab/nsp31503F1503VTttGtt22B.1.4290.000047
ORF1ab/nsp31503F1503LttTttG12B.1.4290.000024
ORF1ab/nsp31503F1503LTttCtt12B.1.4290.000024
ORF1ab/nsp31503F1503LTttCtt22B.1.466.20.000782
ORF1ab/nsp31503F1503LTttCtt22B.1.5610.000794
ORF1ab/nsp31503F1503StTttCt22B.1.617.20.000008
ORF1ab/nsp31503F1503delTTT---22B.1.617.20.000008
ORF1ab/nsp31503F1503LttTttA22C.370.000232
ORF1ab/nsp31503F1503delTTT---22P.10.000032
ORF1ab/nsp31503F1503LttTttA22P.1.150.000465
ORF1ab/nsp31503F1503ITttAtt22Q.30.00029
ORF1ab/nsp31503F1503LttTttG11A0.000387
ORF1ab/nsp31503F1503delTTT---11AD.20.000219
ORF1ab/nsp31503F1503RTTtCGt11All0
ORF1ab/nsp31503F1503ATTtGCt11All0
ORF1ab/nsp31503F1503FttTttC11AY.1000.000046
ORF1ab/nsp31503F1503delTTT---11AY.1010.00049
ORF1ab/nsp31503F1503VTttGtt11AY.1030.000006
ORF1ab/nsp31503F1503delTTT---11AY.1080.001103
ORF1ab/nsp31503F1503LttTttA11AY.1080.001103
ORF1ab/nsp31503F1503FttTttC11AY.1170.000085
ORF1ab/nsp31503F1503LTttCtt11AY.1190.000035
ORF1ab/nsp31503F1503delTTT---11AY.1200.000037
ORF1ab/nsp31503F1503FttTttC11AY.20.000356
ORF1ab/nsp31503F1503CtTttGt11AY.250.000006
ORF1ab/nsp31503F1503LttTttA11AY.250.000006
ORF1ab/nsp31503F1503LttTttA11AY.260.000028
ORF1ab/nsp31503F1503FttTttC11AY.290.000016
ORF1ab/nsp31503F1503delTTT---11AY.30.00001
ORF1ab/nsp31503F1503CtTttGt11AY.30.00001
ORF1ab/nsp31503F1503delTTT---11AY.330.000067
ORF1ab/nsp31503F1503FttTttC11AY.340.000097
ORF1ab/nsp31503F1503delTTT---11AY.360.000148
ORF1ab/nsp31503F1503VTttGtt11AY.40.000002
ORF1ab/nsp31503F1503ITttAtt11AY.40.000002
ORF1ab/nsp31503F1503delTTT---11AY.4.30.000842
ORF1ab/nsp31503F1503LTttCtt11AY.4.40.000409
ORF1ab/nsp31503F1503delTTT---11AY.420.00004
ORF1ab/nsp31503F1503del1Ttt-tt11AY.430.000004
ORF1ab/nsp31503F1503LTttCtt11AY.430.000004
ORF1ab/nsp31503F1503StTttCt11AY.440.000006
ORF1ab/nsp31503F1503LttTttA11AY.440.000006
ORF1ab/nsp31503F1503delTTT---11AY.440.000006
ORF1ab/nsp31503F1503LttTttA11AY.450.000122
ORF1ab/nsp31503F1503PTTtCCt11AY.460.000104
ORF1ab/nsp31503F1503LttTttA11AY.470.000031
ORF1ab/nsp31503F1503delTTT---11AY.660.00107
ORF1ab/nsp31503F1503delTTT---11AY.670.000464
ORF1ab/nsp31503F1503LttTttA11AY.700.000209
ORF1ab/nsp31503F1503delTTT---11AY.760.004831
ORF1ab/nsp31503F1503YtTttAt11AY.820.001357
ORF1ab/nsp31503F1503RTTtCGt11AY.840.000437
ORF1ab/nsp31503F1503CtTttGt11AY.840.000437
ORF1ab/nsp31503F1503delTTT---11AY.9.20.000037
ORF1ab/nsp31503F1503YtTTtAC11AY.9.20.000037
ORF1ab/nsp31503F1503VTttGtt11AY.98.10.000048
ORF1ab/nsp31503F1503delTTT---11AY.990.001049
ORF1ab/nsp31503F1503delTTT---11AY.99.10.001553
ORF1ab/nsp31503F1503delTTT---11B0.000128
ORF1ab/nsp31503F1503StTttCt11B.10.000009
ORF1ab/nsp31503F1503ITttAtt11B.10.000009
ORF1ab/nsp31503F1503YtTttAt11B.1.10.000018
ORF1ab/nsp31503F1503delTTT---11B.1.10.000018
ORF1ab/nsp31503F1503PTTtCCt11B.1.10.000018
ORF1ab/nsp31503F1503LTttCtt11B.1.1.1570.000913
ORF1ab/nsp31503F1503LttTttG11B.1.1.1760.000439
ORF1ab/nsp31503F1503ITttAtt11B.1.1.2200.001859
ORF1ab/nsp31503F1503FttTttC11B.1.1.2320.001815
ORF1ab/nsp31503F1503YtTttAt11B.1.1.2410.00207
ORF1ab/nsp31503F1503FttTttC11B.1.1.3690.000446
ORF1ab/nsp31503F1503delTTT---11B.1.1.370.000193
ORF1ab/nsp31503F1503delTTT---11B.1.1.460.004367
ORF1ab/nsp31503F1503delTTT---11B.1.1.4640.001473
ORF1ab/nsp31503F1503delTTT---11B.1.1.5250.005464
ORF1ab/nsp31503F1503YtTTtAC11B.1.1.70.000001
ORF1ab/nsp31503F1503VTttGtt11B.1.1.70.000001
ORF1ab/nsp31503F1503ATTtGCt11B.1.1.70.000001
ORF1ab/nsp31503F1503CtTttGt11B.1.1.70.000001
ORF1ab/nsp31503F1503FttTttC11B.1.1.700.000341
ORF1ab/nsp31503F1503FttTttC11B.1.1600.000031
ORF1ab/nsp31503F1503LttTttG11B.1.160.70.002079
ORF1ab/nsp31503F1503LTttCtt11B.1.177.510.004566
ORF1ab/nsp31503F1503FttTttC11B.1.177.90.001332
ORF1ab/nsp31503F1503FttTttC11B.1.20.000009
ORF1ab/nsp31503F1503YtTttAt11B.1.20.000009
ORF1ab/nsp31503F1503VTttGtt11B.1.20.000009
ORF1ab/nsp31503F1503delTTT---11B.1.2210.000071
ORF1ab/nsp31503F1503FttTttC11B.1.2400.000216
ORF1ab/nsp31503F1503del1Ttt-tt11B.1.2430.00007
ORF1ab/nsp31503F1503delTTT---11B.1.2650.001271
ORF1ab/nsp31503F1503delTTT---11B.1.416.10.001563
ORF1ab/nsp31503F1503LttTttG11B.1.4270.00005
ORF1ab/nsp31503F1503delTTT---11B.1.4530.003236
ORF1ab/nsp31503F1503del1Ttt-tt11B.1.466.20.000391
ORF1ab/nsp31503F1503FttTttC11B.1.517.10.005263
ORF1ab/nsp31503F1503delTTT---11B.1.5260.000024
ORF1ab/nsp31503F1503delTTT---11B.1.5330.009615
ORF1ab/nsp31503F1503FttTttC11B.1.5600.00463
ORF1ab/nsp31503F1503delTTT---11B.1.5770.000687
ORF1ab/nsp31503F1503del1Ttt-tt11B.1.5960.000087
ORF1ab/nsp31503F1503delTTT---11B.1.617.10.000129
ORF1ab/nsp31503F1503delTTT---11B.1.6210.000089
ORF1ab/nsp31503F1503FttTttC11C.350.000774
ORF1ab/nsp31503F1503FttTttC11D.20.000075
ORF1ab/nsp31503F1503StTttCt11P.10.000016
ORF1ab/nsp31503F1503VTttGtt11P.1.10.000318
ORF1ab/nsp31503F1503delTTT---11P.1.150.000232
ORF1ab/nsp31503F1503LttTttA11P.1.70.000319
ORF1ab/nsp31503F1503FttTttC11R.10.00009

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.