0
$\begingroup$

I've got gene sequences of mouse genes. Each sequence contains variants from the reference genome. I need to find out whether these SNPs/variations are in functionally significant regions (i.e. exons).

I also need to see if these SNPs/mutations are conserved across species.

I'm not very proficient in this, but would BLAST or ENSEMBL be useful here? Is there an easy way to search this? I have the sequences as .txt files. I'm proficient in Python if that's useful as well.

Improve this question
$\endgroup$
2
  • 2
    $\begingroup$ search for variant annotation tools. I can think of VEP in Ensembl, SnpEff, .. You would need your variants in VCF format (possibly other formats) and the tools annotate each variant with various qualitative/quantitative metrics you require $\endgroup$
    – JRodrigoF
    Oct 27, 2021 at 6:35
  • 1
    $\begingroup$ VEP online: ensembl.org/Tools/VEP $\endgroup$
    – Matteo Ferla
    Oct 27, 2021 at 9:44

0

Reset to default

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service and acknowledge you have read our privacy policy.

Browse other questions tagged or ask your own question.