Using pblast alignment to get promoter information and genomic context

Question

[ab3902]

Hi All,

I have a tricky thing. How to do I use pBLAST results to query nucleotide sequences and genomic context? I'd like to take the results of a pBlast, and then get information about the genomic context that the hit is found in. Specifically I'd like to get ~500 bp of nucleotide sequence upstream of the gene in the hit organism, and then I'd also like to pull GO identifiers for the 5 ORFS upstream/downstream of the gene of interest.

Any suggestions? I'm not familiar with any languages except for R, but willing to get dirty to get this done.

Thanks, A