[BiO BB] overlapping/shadow genes in prokaryotes

Martin Gollery marty.gollery at gmail.com
Wed Dec 14 15:23:03 EST 2005

hi Tim,

Are these predicted genes in the same reading frame, or is there a
frameshift between them?

Best regards,

On 12/14/05, Timothy Driscoll <molvisions at mac.com> wrote:
> hi,
> how prevalent is gene overlap in prokaryote genomes?  not just a few
> codons at one end, but large regions of overlap, sometimes as long as
> the complete gene.  I have recently begun curating the genome of a
> Gram-negative bacteria. I am finding a lot of predicted overlapping
> genes (Genemark, Glimmer, RefSeq), often with roughly equivalent
> supporting evidence in favor of both genes (Blast hits, RBS, codon
> bias, etc.).
> I have been told that overlapping genes are uncommon, and never more
> than about 30 codons in the overlap. but I am unable to find any data
> to support this. can anyone please provide some helpful references?
> many thanks,
> tim
> --
> Timothy Driscoll                                em: molvisions at mac.com
> molvisions - see. grasp. learn.                 ph: 919-368-2667
> <http://www.molvisions.com/>                    im: molvisions
> usa:virginia:blacksburg                         tx: molvisions at vtext.com
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Martin Gollery
Associate Director
Center For Bioinformatics
University of Nevada at Reno
Dept. of Biochemistry / MS330
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