Does anyone know of a tool for converting SNPs in VCF format to amino acid mutations in UniProt proteins?
snpEff can do this for Ensembl variants.
For example, for the VCF file with the line:
1 69538 COSM75742 G A . .
snpEff adds the following annotation:
1 69538 COSM75742 G A . . ANN=A|missense_variant|MODERATE|OR4F5|ENSG00000186092|transcript|ENST00000335137.3|protein_coding|1/1|c.448G>A|p.Val150Met|448/918|448/918|150/305||
I am looking for something that would give me the UniProt ID and the protein mutation mapped to the UniProt sequence.