Question: Why some CDS is enlisted as non translating CDS at ENSEMBL (Plant) when it is actually encoding for a protein?
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gravatar for pltbiotech_tkarthi
13 months ago by
CIMMYT, Mexico
pltbiotech_tkarthi180 wrote:

I am interested in a CDS at ENSEMBL, but I found it is Nontranslating CDS and not encoding for a protein. But for the same nucleotide sequence, putative protein is reported in NCBI based on computational annotation and translation. I would like to know, why in ENSEMBL it is enlisted as non translating CDS.

sequence gene • 381 views
ADD COMMENTlink modified 13 months ago • written 13 months ago by pltbiotech_tkarthi180
3
gravatar for lieven.sterck
13 months ago by
lieven.sterck8.0k
VIB, Ghent, Belgium
lieven.sterck8.0k wrote:

"putative protein" has very little meaning in the light of functional annotation, it's like 'hypothetical' , both are often the result of some automated pipeline. it even could very well be an over-prediction.

ENSEMBL uses the tag 'non-translating' CDS for instance to flag pseudogenes (== a gene like feature which likely are not functional as a proteins)

ADD COMMENTlink modified 13 months ago • written 13 months ago by lieven.sterck8.0k
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gravatar for pltbiotech_tkarthi
13 months ago by
CIMMYT, Mexico
pltbiotech_tkarthi180 wrote:

Thanks Lieven Sterck for your kind reply. It's true one of the transcript that I am interested is not translated to a protein, it could be a pseudogene, thanks again for your suggestions.

ADD COMMENTlink modified 13 months ago • written 13 months ago by pltbiotech_tkarthi180
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