cutoff limit on calling ORF

[Pankaj Jaiswal]

Hi Susan,

Dr. Sakata, working at INE/RGP says 50 residues is the cutoff limit.

Pankaj

Katsumi SAKATA wrote:
> 
> Dear Dr.Jaiswal,
> 
> We call an ORF with more than 50 amino acids.
> 
> Regards,
> 
> Katsumi Sakata
> 
> Katsumi Sakata, Ph. D.
> Rice Genome Research Program
> National Institute of Agrobiological Sciences
> 1-2 Kannondai 2-chome, Tsukuba 305-8602, JAPAN
> Phone:81-298-38-7065,2199
> Fax: 81-298-38-7066,2302
> email: ksakata at nias.affrc.go.jp
> ************************************************
> 
> At 5:07 PM -0500 02.3.13, Pankaj Jaiswal wrote:
> > Dear Dr. Sakata,
> >
> > I have a question about What is the cutoff score you use for calling an ORF.
> >As
> > for example in their first draft annotation the cutoff limit was 100 amino
> > acids. So any ORF with equal or more than 100 residues was called an ORF, in
> > Yeast. All the smaller ones were considered as ORF's only when there was an
> > experimental evidence associated with it.
> >
> > Please let me know if possible.
> >
> > Thanks
> > Pankaj
> >
> > ******************************************
> > Pankaj Jaiswal, Ph.D.
> > Postdoctoral Associate
> > Dept. of Plant Breeding
> > Cornell University
> > Ithaca, NY-14853, USA
> >
> > Tel:+1-607-255-3103 / Fax:+1-607-255-6683
> > E mail: pj37 at cornell.edu
> > http://www.gramene.org
> > ******************************************

-- 

******************************************
Pankaj Jaiswal, Ph.D.                                   
Postdoctoral Associate
Dept. of Plant Breeding                             
Cornell University                                   
Ithaca, NY-14853, USA   

Tel:+1-607-255-3103 / Fax:+1-607-255-6683
E mail: pj37 at cornell.edu
http://www.gramene.org   
******************************************