How can I get the fasta sequences of BLASTP results

Question

[tcf.hcdg]

Hello

I have a query sequence and did protein BLAST and get the 100 hits. Now I want to get the sequence of these 100 hits. Is there any way I can get the sequence automatically instead of getting one by one? I use the option download fasta file but sequences are not in fasta file.

Thanks

[glihm]

Hi,

First, when you select all your hits and click on "Download Fasta", files ARE in fasta format. The fasta format does not mean each time Nucleotide sequence. ;)

So, a solution can be -> Find the CDS associated (in the description the CDS link is available) to your protein sequence and with his GENEID find the CDS nucleotide sequence. To achieve this, you can:

1. Script your requests and from the BLASTP matchs, extract the CDS (GENEID) and the nucleotide sequence.
2. Do the stuff manually for each hit (100 it will be a little bit... fastidious).