CoV-GLUE | Mutations | Mutation
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 |
N | 253 | E253D | nonsyn | gaG | gaT | 858 | 815 | 0.949883 | 29030-29032 | |
N | 253 | E253D | nonsyn | gaG | gaC | 858 | 43 | 0.0501166 | 29030-29032 |
Details of the mutation E253D 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 |
N | 253 | E253D | gaG | gaT | 815 | 858 | All | 0.000156 |
N | 253 | E253D | gaG | gaC | 43 | 858 | All | 0.000008 |
N | 253 | E253D | gaG | gaT | 143 | 143 | B.1.36.36 | 0.086093 |
N | 253 | E253D | gaG | gaT | 78 | 81 | B.1.1.7 | 0.00007 |
N | 253 | E253D | gaG | gaC | 3 | 81 | B.1.1.7 | 0.000003 |
N | 253 | E253D | gaG | gaT | 59 | 68 | AY.4 | 0.000092 |
N | 253 | E253D | gaG | gaC | 9 | 68 | AY.4 | 0.000014 |
N | 253 | E253D | gaG | gaT | 34 | 45 | B.1 | 0.000311 |
N | 253 | E253D | gaG | gaC | 11 | 45 | B.1 | 0.000101 |
N | 253 | E253D | gaG | gaT | 41 | 42 | B.1.617.2 | 0.000154 |
N | 253 | E253D | gaG | gaC | 1 | 42 | B.1.617.2 | 0.000004 |
N | 253 | E253D | gaG | gaT | 35 | 35 | AY.103 | 0.000217 |
N | 253 | E253D | gaG | gaT | 32 | 32 | AY.43 | 0.000142 |
N | 253 | E253D | gaG | gaT | 28 | 28 | AY.44 | 0.00017 |
N | 253 | E253D | gaG | gaT | 21 | 21 | P.1 | 0.000331 |
N | 253 | E253D | gaG | gaT | 16 | 17 | AY.39 | 0.000395 |
N | 253 | E253D | gaG | gaC | 1 | 17 | AY.39 | 0.000025 |
N | 253 | E253D | gaG | gaT | 16 | 16 | AY.100 | 0.000736 |
N | 253 | E253D | gaG | gaT | 15 | 15 | AY.47 | 0.000467 |
N | 253 | E253D | gaG | gaT | 12 | 12 | AY.25 | 0.000072 |
N | 253 | E253D | gaG | gaT | 10 | 12 | B.1.177 | 0.000132 |
N | 253 | E253D | gaG | gaC | 2 | 12 | B.1.177 | 0.000026 |
N | 253 | E253D | gaG | gaT | 10 | 11 | B.1.1 | 0.000181 |
N | 253 | E253D | gaG | gaC | 1 | 11 | B.1.1 | 0.000018 |
N | 253 | E253D | gaG | gaT | 11 | 11 | B.1.2 | 0.000097 |
N | 253 | E253D | gaG | gaT | 10 | 10 | AY.102 | 0.000265 |
N | 253 | E253D | gaG | gaT | 10 | 10 | B.1.568 | 0.011111 |
N | 253 | E253D | gaG | gaT | 10 | 10 | R.1 | 0.0009 |
N | 253 | E253D | gaG | gaT | 9 | 9 | AY.4.2 | 0.000195 |
N | 253 | E253D | gaG | gaT | 9 | 9 | B.1.258 | 0.000599 |
N | 253 | E253D | gaG | gaT | 8 | 8 | B.1.362.2 | 0.037736 |
N | 253 | E253D | gaG | gaT | 6 | 7 | AY.5 | 0.000124 |
N | 253 | E253D | gaG | gaC | 1 | 7 | AY.5 | 0.000021 |
N | 253 | E253D | gaG | gaT | 7 | 7 | AY.84 | 0.003062 |
N | 253 | E253D | gaG | gaT | 6 | 6 | AY.20 | 0.000233 |
N | 253 | E253D | gaG | gaT | 6 | 6 | AY.3 | 0.00006 |
N | 253 | E253D | gaG | gaT | 6 | 6 | AY.45 | 0.00073 |
N | 253 | E253D | gaG | gaC | 6 | 6 | B.1.369 | 0.001711 |
N | 253 | E253D | gaG | gaT | 5 | 5 | AY.111 | 0.000916 |
N | 253 | E253D | gaG | gaT | 5 | 5 | AY.120 | 0.000186 |
N | 253 | E253D | gaG | gaT | 5 | 5 | AY.23 | 0.000349 |
N | 253 | E253D | gaG | gaT | 5 | 5 | AY.26 | 0.000142 |
N | 253 | E253D | gaG | gaT | 5 | 5 | AY.7.1 | 0.000564 |
N | 253 | E253D | gaG | gaT | 5 | 5 | B.1.429 | 0.000118 |
N | 253 | E253D | gaG | gaT | 4 | 4 | AD.2 | 0.000876 |
N | 253 | E253D | gaG | gaT | 4 | 4 | AY.6 | 0.000165 |
N | 253 | E253D | gaG | gaT | 3 | 4 | B.1.1.519 | 0.000119 |
N | 253 | E253D | gaG | gaC | 1 | 4 | B.1.1.519 | 0.00004 |
N | 253 | E253D | gaG | gaT | 4 | 4 | B.1.351 | 0.000119 |
N | 253 | E253D | gaG | gaT | 4 | 4 | B.1.526 | 0.000094 |
N | 253 | E253D | gaG | gaT | 4 | 4 | B.1.617.1 | 0.000516 |
N | 253 | E253D | gaG | gaT | 3 | 3 | AY.121 | 0.000406 |
N | 253 | E253D | gaG | gaT | 3 | 3 | AY.98 | 0.000237 |
N | 253 | E253D | gaG | gaT | 3 | 3 | B.1.427 | 0.000151 |
N | 253 | E253D | gaG | gaT | 3 | 3 | B.1.517 | 0.001281 |
N | 253 | E253D | gaG | gaT | 2 | 2 | AY.119 | 0.000071 |
N | 253 | E253D | gaG | gaT | 2 | 2 | AY.16 | 0.000759 |
N | 253 | E253D | gaG | gaT | 2 | 2 | AY.34.1 | 0.00102 |
N | 253 | E253D | gaG | gaT | 2 | 2 | AY.61 | 0.00021 |
N | 253 | E253D | gaG | gaT | 2 | 2 | AY.68 | 0.000547 |
N | 253 | E253D | gaG | gaT | 2 | 2 | AY.9.2 | 0.000073 |
N | 253 | E253D | gaG | gaT | 2 | 2 | B | 0.000256 |
N | 253 | E253D | gaG | gaC | 1 | 2 | B.1.1.37 | 0.000193 |
N | 253 | E253D | gaG | gaT | 1 | 2 | B.1.1.37 | 0.000193 |
N | 253 | E253D | gaG | gaT | 2 | 2 | B.1.1.372 | 0.001377 |
N | 253 | E253D | gaG | gaT | 2 | 2 | B.1.110 | 0.00905 |
N | 253 | E253D | gaG | gaT | 2 | 2 | B.1.177.4 | 0.000422 |
N | 253 | E253D | gaG | gaT | 2 | 2 | B.1.221.1 | 0.005814 |
N | 253 | E253D | gaG | gaT | 2 | 2 | B.1.400 | 0.000858 |
N | 253 | E253D | gaG | gaT | 2 | 2 | B.1.596 | 0.000174 |
N | 253 | E253D | gaG | gaT | 2 | 2 | D.2 | 0.00015 |
N | 253 | E253D | gaG | gaT | 1 | 1 | A.1 | 0.000282 |
N | 253 | E253D | gaG | gaT | 1 | 1 | A.2.5 | 0.000499 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.1 | 0.000396 |
N | 253 | E253D | gaG | gaC | 1 | 1 | AY.10 | 0.00053 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.108 | 0.001103 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.113 | 0.000142 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.116 | 0.000287 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.116.1 | 0.000311 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.12 | 0.000316 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.14 | 0.000088 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.29 | 0.000016 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.33 | 0.000067 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.35 | 0.000233 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.39.1 | 0.00004 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.4.5 | 0.000107 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.41 | 0.000294 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.42 | 0.00004 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.46 | 0.000104 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.46.4 | 0.000165 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.58 | 0.000907 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.59 | 0.00053 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.64 | 0.000595 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.7 | 0.000196 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.70 | 0.000209 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.71 | 0.000475 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.75.1 | 0.00018 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.88 | 0.000884 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.90 | 0.000684 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.98.1 | 0.000048 |
N | 253 | E253D | gaG | gaT | 1 | 1 | AY.99.2 | 0.000092 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.121 | 0.002427 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.216 | 0.00089 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.222 | 0.000204 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.255 | 0.00303 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.28 | 0.000311 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.3 | 0.008696 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.311 | 0.000358 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.33 | 0.000421 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.331 | 0.011628 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.337 | 0.003597 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.39 | 0.00051 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.46 | 0.004367 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.51 | 0.001718 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.53 | 0.013699 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.1.63 | 0.000386 |
N | 253 | E253D | gaG | gaC | 1 | 1 | B.1.157 | 0.002985 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.160 | 0.000031 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.160.7 | 0.002079 |
N | 253 | E253D | gaG | gaC | 1 | 1 | B.1.177.21 | 0.000076 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.177.44 | 0.000519 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.177.51 | 0.004566 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.177.57 | 0.000281 |
N | 253 | E253D | gaG | gaC | 1 | 1 | B.1.177.73 | 0.000566 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.221 | 0.000071 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.234 | 0.000132 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.240 | 0.000216 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.258.11 | 0.000396 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.258.14 | 0.00098 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.258.17 | 0.000104 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.258.5 | 0.008772 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.301 | 0.005917 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.351.3 | 0.000876 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.36 | 0.000146 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.36.17 | 0.000494 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.36.29 | 0.000517 |
N | 253 | E253D | gaG | gaC | 1 | 1 | B.1.379 | 0.017241 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.391 | 0.001127 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.453 | 0.003236 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.499 | 0.00105 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.521 | 0.004975 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.623 | 0.000536 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.1.8 | 0.001972 |
N | 253 | E253D | gaG | gaT | 1 | 1 | B.3.1 | 0.001658 |
N | 253 | E253D | gaG | gaC | 1 | 1 | B.4 | 0.002208 |
N | 253 | E253D | gaG | gaT | 1 | 1 | C.4 | 0.01 |
N | 253 | E253D | gaG | gaT | 1 | 1 | P.1.12 | 0.000484 |
N | 253 | E253D | gaG | gaT | 1 | 1 | P.1.15 | 0.000232 |
N | 253 | E253D | gaG | gaT | 1 | 1 | Q.3 | 0.000145 |
N | 253 | E253D | gaG | gaT | 1 | 1 | Q.4 | 0.000455 |
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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