gene annotation

[Pankaj Jaiswal]

Dear Ana,

The problem you are citing is an obvious one. In Gramene the data is update 
every three months. There is a possibility that with in this 3 month period, the 
BAC clones submitted to the GenBank by sequencing centers may under go 
revision/updates with a new or a modified gene model for a given gene. As of 
this time, when the rice genome is being assembled, this situation is going to 
remain fluid for a while and we do not foresee any quick resolutions. Gramene 
provides its own annotation of gene models based on predictions by the Fgenesh 
program and alignments to the ESTs and unigene sets/clusters. Additionally we 
carry all the annotation provided by the sequencing centers.

We hope this will address your question.

Sincerely
Pankaj
gramene at gramene.org


Ana Caicedo wrote:

> To whom it may concern,
> 
> I have found differences in gene annotation and predicted intron/exon 
> structure for rice genes found in Genbank and Gramene. I would like to 
> know whichof the 2 databases is considered "safer" and more up-to-date 
> on gene annotation? Are completed clone sequences being submitted 
> simultaneously to both databases?
> 
> Many thanks.
> 
> Best Regards,
> Ana Caicedo
> ------------------------------------------------------------------------
> Ana Lucía Caicedo                               Post-Doctoral Researcher
> Department of Genetics                                    (919) 515-5738
> Campus Box 7614                                     ana_caicedo at ncsu.edu
> North Carolina State University                   Raleigh, NC 27695-7614
> ------------------------------------------------------------------------
>