Tuesday, July 14, 2020

Spike D614G mutation


aln2snps

    
msa_position p q ref_position ref_seq type gene start end protein_id feature_position feature_position_mod3 triplet_start triplet_end ref_triplet mut_triplet ref_AA mut_AA ref_freq mut_freq mut_seq
3653
36626
1.98774342659889E-68
4.81792614569765E-68
23402
A
CDS
S
21563
25384
YP_009724390.1
1841
2
23401
23403
GAT
GGT
D
G
11231
30413
G

D614 to G614 change ~ Dewpoint2meter (humidity)

614x3=1842, so, position 1841 is the 2nd nucleotide position. This is consistent with mod3=2.

Code:
https://github.com/QinLab/aln2snps/blob/master/annotate_gwas_with_GFF.ipynb

Output:
https://github.com/QinLab/aln2snps/blob/master/0613/gwas-dewpoint-meta0613-positions-pq-gff-draft20200713.csv



There are other spike mutations. Are they mentioned in previous publications?




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