PCR/sequence through bad region

Chris LaRosa clarosa at biocomp.unl.edu
Fri Mar 24 11:09:44 EST 2000

Betaine......is good for your problem.   You could also make a primers
that sits on the bad g places.   make them ggggggggggggggggggg(bases in
your sequence) or ggggggggggggggggggggg(N). Also CCCCCCCCCCCCCCC(bases
in your sequence.OR N.   

If your using Amplitaq FS  BigDye, this enzyme is the worst for
homopolymers and Gs.    Perkin Elmer has a kit to get around that.  

The PCR enhancer(no betaine other secret junk), or Failsafe kit from
Epicenter also have betaine and may do the same thing.

"T. Max M. Soegaard" wrote:
> If the GC content  or secondary structures are a problem maybe it would help

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