Primer design

Discussion of all aspects of biological molecules, biochemical processes and laboratory procedures in the field.

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Primer design

Post by jamesgoat » Thu Aug 17, 2006 7:29 pm

I have some questions in designing primers.

1. I read somewhere that delta G for binding has to be positive. Is this true, and why?

2. Is it good to design a long primer (more than 50nt)? What is the ad. and disad. of doing this?

Thank you for attention.

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Post by oppox » Thu Aug 17, 2006 11:33 pm

I have never calculated any delta G values, just calculating the Tm.
I have designed primers 50 bases long and I think they can be longer, they should atleast be around 20-25. The disadvantages I can think of is maybe its harder to synthesize long primers and u may have some unspecific binding perhaps.


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Post by monica » Wed Aug 23, 2006 10:32 pm

Try the tools from BioInfoMan at

Good luck!

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