CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : Mut = I1683T

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/nsp31683I1683TI2501TnonsynaTcaCc33215332100.9998497766-7768
ORF1ab/nsp31683I1683TI2501TnonsynaTCaCT3321550.0001505347766-7768

Details of the mutation I1683T within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31683I1683TaTcaCc3321033215All0.006352
ORF1ab/nsp31683I1683TaTCaCT533215All0.000001
ORF1ab/nsp31683I1683TaTcaCc1464714648B.1.2580.974712
ORF1ab/nsp31683I1683TaTCaCT114648B.1.2580.000067
ORF1ab/nsp31683I1683TaTcaCc94279429B.1.258.170.980141
ORF1ab/nsp31683I1683TaTCaCT29429B.1.258.170.000208
ORF1ab/nsp31683I1683TaTcaCc24782478B.1.258.110.982164
ORF1ab/nsp31683I1683TaTcaCc994994B.1.258.140.97451
ORF1ab/nsp31683I1683TaTcaCc610610B.1.258.160.998363
ORF1ab/nsp31683I1683TaTcaCc579579B.1.258.30.969849
ORF1ab/nsp31683I1683TaTcaCc506506B.1.258.70.967495
ORF1ab/nsp31683I1683TaTcaCc365365B.1.258.220.973333
ORF1ab/nsp31683I1683TaTcaCc336336B.1.5700.988235
ORF1ab/nsp31683I1683TaTcaCc314314B.10.002876
ORF1ab/nsp31683I1683TaTcaCc282282B.1.258.40.972414
ORF1ab/nsp31683I1683TaTcaCc221221B.1.258.20.995495
ORF1ab/nsp31683I1683TaTcaCc200200B.1.258.91
ORF1ab/nsp31683I1683TaTcaCc152152AY.240.065517
ORF1ab/nsp31683I1683TaTcaCc141141B.1.258.191
ORF1ab/nsp31683I1683TaTcaCc127127B.1.258.210.984496
ORF1ab/nsp31683I1683TaTcaCc122122B.1.258.120.96063
ORF1ab/nsp31683I1683TaTcaCc105105AY.1030.000652
ORF1ab/nsp31683I1683TaTcaCc100100B.1.258.50.877193
ORF1ab/nsp31683I1683TaTcaCc9393B.1.258.241
ORF1ab/nsp31683I1683TaTcaCc8787B.1.258.100.988636
ORF1ab/nsp31683I1683TaTcaCc7171AY.440.000432
ORF1ab/nsp31683I1683TaTcaCc6969B.1.1.70.000062
ORF1ab/nsp31683I1683TaTcaCc6363B.1.258.201
ORF1ab/nsp31683I1683TaTcaCc5353B.1.258.151
ORF1ab/nsp31683I1683TaTcaCc4949B.1.258.60.960784
ORF1ab/nsp31683I1683TaTcaCc4848B.1.1600.001497
ORF1ab/nsp31683I1683TaTcaCc4848B.1.20.000423
ORF1ab/nsp31683I1683TaTcaCc4747B.1.1.3040.132022
ORF1ab/nsp31683I1683TaTcaCc4444AY.250.000265
ORF1ab/nsp31683I1683TaTcaCc4444B.1.1770.000579
ORF1ab/nsp31683I1683TaTcaCc4444B.1.5750.01335
ORF1ab/nsp31683I1683TaTcaCc4343B.1.10.00078
ORF1ab/nsp31683I1683TaTcaCc4242B.1.258.231
ORF1ab/nsp31683I1683TaTcaCc4141B.1.617.20.000154
ORF1ab/nsp31683I1683TaTcaCc3131AY.30.000308
ORF1ab/nsp31683I1683TaTcaCc3030P.10.000473
ORF1ab/nsp31683I1683TaTcaCc2929B.1.6090.013902
ORF1ab/nsp31683I1683TaTcaCc2828AY.40.000044
ORF1ab/nsp31683I1683TaTcaCc2424B.1.1.700.008186
ORF1ab/nsp31683I1683TaTcaCc2323AY.920.006607
ORF1ab/nsp31683I1683TaTcaCc2323G.10.958333
ORF1ab/nsp31683I1683TaTcaCc1717B.1.1870.566667
ORF1ab/nsp31683I1683TaTcaCc1414AY.430.000062
ORF1ab/nsp31683I1683TaTcaCc1414B.1.36.270.010687
ORF1ab/nsp31683I1683TaTcaCc1313AY.610.001362
ORF1ab/nsp31683I1683TaTcaCc1212B.1.1.2140.000665
ORF1ab/nsp31683I1683TaTcaCc1212B.1.1.670.054795
ORF1ab/nsp31683I1683TaTcaCc1212B.1.2210.000852
ORF1ab/nsp31683I1683TaTcaCc1111AY.470.000342
ORF1ab/nsp31683I1683TaTcaCc1111B0.001406
ORF1ab/nsp31683I1683TaTcaCc1010AY.460.001041
ORF1ab/nsp31683I1683TaTcaCc1010B.1.258.181
ORF1ab/nsp31683I1683TaTcaCc88A0.003096
ORF1ab/nsp31683I1683TaTcaCc88AY.46.60.000578
ORF1ab/nsp31683I1683TaTcaCc88B.1.2220.013536
ORF1ab/nsp31683I1683TaTcaCc77AY.1190.000247
ORF1ab/nsp31683I1683TaTcaCc77AY.290.00011
ORF1ab/nsp31683I1683TaTcaCc77AY.39.10.000277
ORF1ab/nsp31683I1683TaTcaCc77B.1.177.730.003964
ORF1ab/nsp31683I1683TaTcaCc77B.1.3750.005738
ORF1ab/nsp31683I1683TaTcaCc77B.1.6000.040936
ORF1ab/nsp31683I1683TaTcaCc77B.4.10.132075
ORF1ab/nsp31683I1683TaTcaCc66AY.1180.000376
ORF1ab/nsp31683I1683TaTcaCc66AY.390.000148
ORF1ab/nsp31683I1683TaTcaCc66AY.420.000241
ORF1ab/nsp31683I1683TaTcaCc66B.1.177.60.005859
ORF1ab/nsp31683I1683TaTcaCc66B.1.177.860.001101
ORF1ab/nsp31683I1683TaTcaCc66B.1.5900.027273
ORF1ab/nsp31683I1683TaTcaCc55AY.1020.000133
ORF1ab/nsp31683I1683TaTcaCc55B.1.214.20.002998
ORF1ab/nsp31683I1683TaTcaCc55Q.70.005556
ORF1ab/nsp31683I1683TaTcaCc44AY.1170.000338
ORF1ab/nsp31683I1683TaTcaCc44AY.200.000155
ORF1ab/nsp31683I1683TaTcaCc44AY.260.000113
ORF1ab/nsp31683I1683TaTcaCc44AY.60.000165
ORF1ab/nsp31683I1683TaTcaCc44B.1.1.390.002039
ORF1ab/nsp31683I1683TaTcaCc44B.1.1.5190.000159
ORF1ab/nsp31683I1683TaTcaCc44B.1.5260.000094
ORF1ab/nsp31683I1683TaTCaCT230.111111
ORF1ab/nsp31683I1683TaTcaCc130.055556
ORF1ab/nsp31683I1683TaTcaCc33AU.30.006329
ORF1ab/nsp31683I1683TaTcaCc33AY.1000.000138
ORF1ab/nsp31683I1683TaTcaCc33AY.1130.000427
ORF1ab/nsp31683I1683TaTcaCc33AY.3.10.000256
ORF1ab/nsp31683I1683TaTcaCc33AY.750.000168
ORF1ab/nsp31683I1683TaTcaCc33B.1.1.330.001263
ORF1ab/nsp31683I1683TaTcaCc33B.1.1.500.002037
ORF1ab/nsp31683I1683TaTcaCc33B.1.177.440.001557
ORF1ab/nsp31683I1683TaTcaCc33B.1.360.000438
ORF1ab/nsp31683I1683TaTcaCc33B.1.4110.011111
ORF1ab/nsp31683I1683TaTcaCc33B.1.5960.000261
ORF1ab/nsp31683I1683TaTcaCc33P.20.00056
ORF1ab/nsp31683I1683TaTcaCc22A.2.5.30.020619
ORF1ab/nsp31683I1683TaTcaCc22AY.330.000134
ORF1ab/nsp31683I1683TaTcaCc22AY.4.20.000043
ORF1ab/nsp31683I1683TaTcaCc22AY.9.20.000073
ORF1ab/nsp31683I1683TaTcaCc22B.1.1.1530.002191
ORF1ab/nsp31683I1683TaTcaCc22B.1.1.2160.001781
ORF1ab/nsp31683I1683TaTcaCc22B.1.1.5250.010929
ORF1ab/nsp31683I1683TaTcaCc22B.1.1570.00597
ORF1ab/nsp31683I1683TaTcaCc22B.1.177.210.000153
ORF1ab/nsp31683I1683TaTcaCc22B.1.177.670.015267
ORF1ab/nsp31683I1683TaTcaCc22B.1.177.810.000379
ORF1ab/nsp31683I1683TaTcaCc22B.1.2370.00995
ORF1ab/nsp31683I1683TaTcaCc22B.1.2430.000139
ORF1ab/nsp31683I1683TaTcaCc22B.1.3510.000059
ORF1ab/nsp31683I1683TaTcaCc22B.1.4290.000047
ORF1ab/nsp31683I1683TaTcaCc22B.1.4320.022472
ORF1ab/nsp31683I1683TaTcaCc22B.1.4800.004975
ORF1ab/nsp31683I1683TaTcaCc22B.1.5950.000522
ORF1ab/nsp31683I1683TaTcaCc22B.1.6210.000177
ORF1ab/nsp31683I1683TaTcaCc22C.290.125
ORF1ab/nsp31683I1683TaTcaCc22Z.10.00578
ORF1ab/nsp31683I1683TaTcaCc11A.2.50.000499
ORF1ab/nsp31683I1683TaTcaCc11A.30.002096
ORF1ab/nsp31683I1683TaTcaCc11AY.100.00053
ORF1ab/nsp31683I1683TaTcaCc11AY.1070.000466
ORF1ab/nsp31683I1683TaTcaCc11AY.1160.000287
ORF1ab/nsp31683I1683TaTcaCc11AY.300.000396
ORF1ab/nsp31683I1683TaTcaCc11AY.4.50.000107
ORF1ab/nsp31683I1683TaTcaCc11AY.46.40.000165
ORF1ab/nsp31683I1683TaTcaCc11AY.46.50.000198
ORF1ab/nsp31683I1683TaTcaCc11AY.5.40.000277
ORF1ab/nsp31683I1683TaTcaCc11AY.540.000095
ORF1ab/nsp31683I1683TaTcaCc11AY.590.00053
ORF1ab/nsp31683I1683TaTcaCc11AY.600.000938
ORF1ab/nsp31683I1683TaTcaCc11AY.680.000274
ORF1ab/nsp31683I1683TaTcaCc11AY.700.000209
ORF1ab/nsp31683I1683TaTcaCc11AY.710.000475
ORF1ab/nsp31683I1683TaTcaCc11AY.75.10.00018
ORF1ab/nsp31683I1683TaTcaCc11AY.840.000437
ORF1ab/nsp31683I1683TaTcaCc11AY.90.000068
ORF1ab/nsp31683I1683TaTcaCc11AY.99.20.000092
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.100.001115
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.1610.003534
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.1700.001247
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.2220.000204
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.2880.001916
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.370.000193
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.3720.000689
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.3890.006061
ORF1ab/nsp31683I1683TaTcaCc11B.1.1.5260.003546
ORF1ab/nsp31683I1683TaTcaCc11B.1.1110.001175
ORF1ab/nsp31683I1683TaTcaCc11B.1.1460.004237
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.120.000152
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.280.007407
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.40.000211
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.420.000894
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.500.004695
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.70.000165
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.720.00339
ORF1ab/nsp31683I1683TaTcaCc11B.1.177.750.001041
ORF1ab/nsp31683I1683TaTcaCc11B.1.2060.000816
ORF1ab/nsp31683I1683TaTcaCc11B.1.221.10.002907
ORF1ab/nsp31683I1683TaTcaCc11B.1.2420.018868
ORF1ab/nsp31683I1683TaTcaCc11B.1.2470.014925
ORF1ab/nsp31683I1683TaTcaCc11B.1.2840.013158
ORF1ab/nsp31683I1683TaTcaCc11B.1.2930.0125
ORF1ab/nsp31683I1683TaTcaCc11B.1.3260.007576
ORF1ab/nsp31683I1683TaTcaCc11B.1.3490.000715
ORF1ab/nsp31683I1683TaTcaCc11B.1.36.350.002604
ORF1ab/nsp31683I1683TaTcaCc11B.1.3620.001541
ORF1ab/nsp31683I1683TaTcaCc11B.1.3800.006623
ORF1ab/nsp31683I1683TaTcaCc11B.1.4060.006061
ORF1ab/nsp31683I1683TaTcaCc11B.1.4160.001269
ORF1ab/nsp31683I1683TaTcaCc11B.1.4730.019231
ORF1ab/nsp31683I1683TaTcaCc11B.1.5250.000113
ORF1ab/nsp31683I1683TaTcaCc11B.1.5760.000907
ORF1ab/nsp31683I1683TaTcaCc11B.1.5990.00365
ORF1ab/nsp31683I1683TaTcaCc11B.1.6280.000352
ORF1ab/nsp31683I1683TaTcaCc11B.1.6370.000073
ORF1ab/nsp31683I1683TaTcaCc11B.1.6380.052632
ORF1ab/nsp31683I1683TaTcaCc11B.1.9.50.005682
ORF1ab/nsp31683I1683TaTcaCc11K.10.02381
ORF1ab/nsp31683I1683TaTcaCc11P.1.70.000319
ORF1ab/nsp31683I1683TaTcaCc11Q.30.000145

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.