I have question about rice gene locus and RefSeq data

[Gregory S. Brown]

Hi,

If I understand your question correctly, you want a listing of a  
Genbank peptide accession id that is associated with a given Gramene  
gene locus id, i.e;
Gramene gene ID     RefSeq peptide
-----------------------------------
LOC_Os01g01340      XP_549822

The easiest way to get this information is by using the Gramene Multi  
MartView system via the web interface.  http://www.gramene.org/Multi/ 
martview/qVTCczlV4p.mart

Select the correct genome on this first page (Rice Gene Models 
(TIGRv4)).  The second page lets you restrict the search in many  
ways. One way to accomplish your goal is to enter one or more Gramene  
IDs in the "ID list limit" box.   On the next page are options for  
the output.  This page will let you select "RefSeq Peptide ID" and/or  
"RefSeq Peptide Predicted ID".  Select the type of output you need  
and then hit the export button.

There is a pretty good help page for Mart here that will help you  
navigate this very powerful system: http://www.gramene.org/ 
Oryza_sativa/helpview?se=1;ref=http%3A%2F%2Fwww.gramene.org% 
2Fdocumentation%2F;kw=martview

There should be a direct link to MartView from each Gramene Gene  
Report page.  Apparently there is a small bug in the current release  
as I do not see the link to "Export Gene info in region" in the left  
navigation menu.

Hope this helps. Good luck!

Greg Brown




On Sep 14, 2006, at 9:37 PM, Wenchi Chang_NTHU wrote:

> Dear Sir,
> Excuse me to trouble you.
> I'm a PhD student in Taiwan.
> Your database is so powerful and useful.
> However, I want to know how to download the corresponding locus ID  
> and GenBank accession number (RefSeq peptide predicted on your  
> website)of a gene?
> For example, LOC_Os01g01340 V.S. RefSeq peptide predicted  
> XP_549822.1 ( http://www.gramene.org/Oryza_sativa/geneview? 
> gene=LOC_Os01g01340)
> Could you please help and reply me.
> Because I found this kind of data over many many databses, but only  
> supplied on your website.
> If you could reply me, I would be very very happy.
> Thank you very much!
>
> Best Regards,
>
> Chang, wenchi
>
> <004601c6d878$4de0efa0$1d0aa8c0>
>
>