<p>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).</p>
<p>I also need to see if these SNPs/mutations are conserved across species.</p>
<p>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.</p>

CC BY-SA 4.0
2021-10-27T06:35:30.510Z
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
JRodrigoF
CC BY-SA 4.0
2021-10-27T09:44:54.357Z
VEP online: https://www.ensembl.org/Tools/VEP
Matteo Ferla
<blast><ensembl>
Identifying Variant Conservation Across Species
# Identifying Variant Conservation Across Species

(Asked by: username_0 on 2021-10-26)

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.

**Tags:** blast, ensembl
> **Comments:**
> **username_1**: 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  
> **username_2**: VEP online: https://www.ensembl.org/Tools/VEP  

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