Finding gene names of a fasta file contains gene sequences
I have a fasta file contains sequence of 800 genes. The genes belong to different livings and I need to get list of gene names as output. I tried blast site, but the results of blast is a very long list for every gene.
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dark_rider_2010 •
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Your question is not clear. You want gene names from fasta file ? Or you want to map description of each gene which is in your fasta file ? What type of ID you have ?Kindly elaborate and explain more clearly
~C.
oh I'm sorry. My fasta file contains a sub-sequence from genome of a living (which I don't know what it is). I don't have any ID of the gene except its sequence. I need to know an ID of the gene (gene symbol, entrez ID, etc). So I want to know the gene names of sequences in fasta file.
OK. Blast is the way to go. Once you get the blast results get first hit for each query. Default blast result gives you first hit as most confidant hit.
-C.
I'm not sure, but I think Kraken is what you need.
Wow, I didn't know Kraken at all, is there any online version of it?
I don't think there is. You need to run it locally.