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primer design


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2 replies to this topic

#1 SF_HK

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Posted 18 November 2010 - 12:26 AM

I need to design primers for a particular domain in my gene. The gene has got several different types of domain but I would like to check the expression of one particular domain.

Is there a tool that can help locate the mRNA sequence of a particualr domain? e.g. where the domain starts and finishes in term of bp in mRNA?

#2 BioMiha

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Posted 18 November 2010 - 01:33 AM

You can try primer blast or blast in general. It detects putative domains.

#3 Rsm

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Posted 18 November 2010 - 04:03 AM

Manually: Translate your mRNA - go to SMART EMBL to detect domains - align domains to your translated mRNA - design primers.
Tedious, I know. Maybe someone has a better idea?

rsm
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