[Bioperl-l] Methods to GenBank

Jason Stajich jason at bioperl.org
Mon Jul 28 16:45:42 EDT 2008


you want the species method.
  see the Seq HowTo on the bioperl wiki -> bioperl.org/wiki for more  
detailed info on how to get all the fields out from a seq object.

-jason
On Jul 28, 2008, at 1:36 PM, ocar campos wrote:

>
> Hello:
>         I'm building a script to get information from GenBank  
> according to some Accession Id, I've looked for a method  to  
> retrieve the organism lines from the GenBank, but i haven't found  
> any specific for this. Does anyone know what is the method for this?
>
> For example i got this GenBank File:
>
>    LOCUS       SLLCP                   1058 bp ss-RNA     linear    
> VRL 16-AUG-1994
>    DEFINITION  Satellite tobacco mosaic virus coat protein RNA,  
> complete cds.
>    ACCESSION   M25782
>    VERSION     M25782.1  GI:530201
>    KEYWORDS    coat protein.
>    SOURCE      Tobacco necrosis satellite virus
>    ORGANISM  Tobacco necrosis satellite virus
>                Viruses; Satellites; Satellite Viruses.
>    REFERENCE   1  (bases 1 to 1058)
>    AUTHORS   Mirkov,T.E., Mathews,D.M., Du Plessis,D.H. and Dodds,J.A.
>    TITLE     Nucleotide sequence and translation of satellite  
> tobacco mosaic
>             virus RNA
>
>    And I want to get the Organism part in my script.
>
>
>
> Regards
>
> O'car Campos C.
> Estudiante Ingeniería en Bioinformática
> Universidad de Talca.
>
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