If I have a short amino acid sequence (peptide), such as the phosphorylation sites of protein. how could I determine the genomic coordinate for this amino acid sequence.

Question

[Richard Yang]

If I have a short amino acid sequence (peptide), such as the phosphorylation sites of protein. how could I determine the genomic coordinate for this amino acid sequence.

[GenoMax]

You could also perform a Mascot search (if you have a small number of sequences).

Answer 1

[5heikki]

tblastn the peptide against the genome it originates from

tblastn = search translated nucleotide databases using a protein query