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[SO-devel] Re: annotating to pseudogenes

Judith Blake jblake at informatics.jax.org
Tue Mar 14 08:58:31 PST 2006


Annotation for lineage is something entirely differnt than annotating 
for function.

judy

Bruce Aronow wrote:

>Hi Michael,
>
>What about if a standard pseudogene evolves into a regulatory microRNA?
>I would like to do a query for what fraction of pseudogenes are transcribed
>and what fraction of them might be producing regulatory RNAs.. How would the
>microRNA-generating locus be annotated to recognize that it derived from a
>(likely) pseudogene origin?
>
>Regards, Bruce 
>
>
>On 3/14/06 11:37 AM, "Michael Ashburner (Genetics)" <ma11 at gen.cam.ac.uk>
>wrote:
>
>  
>
>>Folks
>>
>>I think that it cannot be too strongly stressed that pseudogenes
>>should NOT be annotated with any GO term whatsoever, and
>>certainly not unknown.
>>
>>If you find something which someone says is a pseudogene but has
>>a 'function' then it is NOT a pseudogene, but something else.
>>This, I suspect is the case for the Tryp things, that is that
>>they are what SO would call a cassette or something.
>>
>>Michael
>>
>>
>>
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>
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