Stack Exchange Network
Stack Exchange network consists of 181 Q&A communities including Stack Overflow, the largest, most trusted online community for developers to learn, share their knowledge, and build their careers.
Visit Stack Exchange
Biology Stack Exchange is a question and answer site for biology researchers, academics, and students. It only takes a minute to sign up.
Sign up to join this community
Anybody can ask a question
The best answers are voted up and rise to the top
Is there an overview over SARS-CoV-2 lineages that have some insertions in their genomes? Tools based on GISAID sequences do not show them.
I am aware of a few lineages with insertions
- Mu with S:YY144-145TSN (part of lineage definition)
- B.1.1.28 with S:ins214ANRN (as I understand, only in a subgroup of the lineage)
- B.1 with S:ins214QAS (as I understand, only in a subgroup of the lineage)—now assigned the lineage B.1.639
I'm interested in lineages that occur in the wild, I am aware of some more insertions occurring in lab experiments.
asked Sep 9, 2021 at 14:23
That's because handling insertions is a bit harder than point mutations and deletions.
With covizu I get this, unfortunately it doesn't tell us the insert and the translation. Hope someone can give a more comprehensive answer
answered Sep 9, 2021 at 21:02
56022 silver badges88 bronze badges
With the help of the list by @reuns, I was able to hunt down some of the mutations in terms of amino acids:
- AT.1 has S:ins679GIAL S:N679K (found in a report from Public Health England)
- A.2.5 has S:ins214AAG (usually, the insert can have another point mutation to S:ins214ASG, and it can occur reduplicated as S:ins214AAGAAG
- B.1.214.2 has S:ins214TDR (found in a preprint by Gerdol on Recurrent Insertion Region RIR1, the preprint has some more rare insertions in the same region)
The insertions in lines P.* fall in the small gap between ORF8 and N and don't affect AAs, the insertion in B.1.36.20 falls in ORF10 that is probably not coding a protein.
answered Sep 10, 2021 at 14:45
You must log in to answer this question.
Not the answer you're looking for? Browse other questions tagged