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 |
ORF1ab/nsp4 | 459 | D459N | D3222N | nonsyn | Gat | Aat | 3710 | 3700 | 0.997305 | 9929-9931 |
ORF1ab/nsp4 | 459 | D459N | D3222N | nonsyn | GaT | AaC | 3710 | 10 | 0.00269542 | 9929-9931 |
Details of the mutation D459N 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 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3700 | 3710 | All | 0.000708 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 10 | 3710 | All | 0.000002 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1746 | 1747 | C.36.3 | 0.990357 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 1 | 1747 | C.36.3 | 0.000567 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 522 | 522 | C.36 | 0.47541 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 503 | 507 | B.1.1.7 | 0.00045 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 4 | 507 | B.1.1.7 | 0.000004 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 328 | 328 | C.36.3.1 | 0.891304 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 132 | 132 | B.1 | 0.001209 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 69 | 69 | B.1.243.2 | 1 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 46 | 46 | B.1.509 | 0.039827 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 37 | 37 | AY.4 | 0.000058 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 33 | 33 | B.1.346 | 0.04325 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 30 | 30 | B.1.1 | 0.000544 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 24 | 24 | B.1.182 | 0.173913 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 20 | 20 | B.1.177 | 0.000263 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 16 | 16 | AY.6 | 0.000658 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 14 | 14 | B.1.617.2 | 0.000053 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 10 | 10 | AY.100 | 0.00046 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 9 | 9 | AY.43 | 0.00004 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 8 | 8 | AY.20 | 0.000311 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 8 | 8 | B.1.1.294 | 0.010127 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 8 | 8 | P.1.7 | 0.002554 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 7 | 7 | P.1.14 | 0.000335 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 6 | 6 | AY.121 | 0.000812 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 6 | 6 | C.17 | 0.333333 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 5 | 5 | B.1.23 | 0.030303 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 5 | 5 | C.35 | 0.00387 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 5 | 5 | C.39 | 0.09434 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 5 | 5 | P.5 | 0.068493 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 4 | 4 | AY.26 | 0.000113 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 4 | 4 | AY.3.1 | 0.000341 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 4 | 4 | B.1.637 | 0.000292 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | AY.103 | 0.000019 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | AY.44 | 0.000018 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | B.1.1.1 | 0.00098 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | B.1.1.28 | 0.000934 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | B.1.239 | 0.003663 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | B.1.351 | 0.000089 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | B.6 | 0.00273 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 3 | 3 | C.16 | 0.003181 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 3 | P.1 | 0.000032 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 1 | 3 | P.1 | 0.000016 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | AY.14 | 0.000176 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | AY.25 | 0.000012 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | AY.38 | 0.000999 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | AY.53 | 0.000575 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.1.241 | 0.004141 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.1.372 | 0.001377 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.1.458 | 0.083333 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 2 | B.1.2 | 0.000009 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 1 | 2 | B.1.2 | 0.000009 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.324 | 0.00321 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.375 | 0.001639 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.448 | 0.005249 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.623 | 0.001073 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | B.1.81 | 0.042553 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.107 | 0.000466 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B | 0.000128 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.1.182 | 0.090909 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.1.220 | 0.001859 |
ORF1ab/nsp4 | 459 | D459N | GaT | AaC | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.1.402 | 0.011111 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.1.523 | 0.001563 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.108 | 0.005814 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.177.3 | 0.007634 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.177.53 | 0.002392 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.356 | 0.001727 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.399 | 0.001934 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.605 | 0.005952 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | B.1.621.1 | 0.000506 |
ORF1ab/nsp4 | 459 | D459N | Gat | Aat | 1 | 1 | P.1.12 | 0.000484 |
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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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