[Bioperl-l] retrieving gene sequence given protein id

Jason Stajich jason at bioperl.org
Wed May 6 19:37:30 EDT 2009


or the bioperl modules and the related Entrez query module:
  Bio::DB::GenBank
  Bio::DB::GenPept

covered in the HOWTOs

-jason
On May 6, 2009, at 4:30 PM, Alden Huang wrote:

> I am pretty sure you can just do that on the NCBI website through
> "Batch Entrez." Just select like gene or nucleotide for your database.
> If I am wrong, sorry.
>
> On Wed, May 6, 2009 at 4:21 AM, Daniel Webb <webb.daniel at yahoo.com>  
> wrote:
>>
>> Hi all,
>>
>> is there a script or a module with which I could, given the list of  
>> protein gi or accessions, retrieve corresponding genes from Entrez  
>> Gene/GenBank? What I would like is sequence of the whole gene in  
>> fasta format, with all the introns and UTRs.
>> I would be grateful for any help
>>
>> Dan
>>
>>
>>
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Jason Stajich
jason at bioperl.org






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