Oligo Madness

[Richard P Grant]

Hi Folks,

I'm designing oligos for mutagenesis.  The mutagenesis will be done by the
polymerase method (eg Stratagene 'QuikChange').  It is, apparently,
advisable to have C or G at each end of the oligo.

The end of one of my - putative - oligos looks like ...CCATCACCC.  I know
with sequencing that G/C clamps at the end are a Bad Idea.  What worries
me is that 3Cs at the end might cause mis-priming.  Would ...CCATCAC
work better?  The latter case has 9 parent bases after the last mutant
site, which is the bare minimum for effective hybridization.  Does anyone
have any comments?

TIA,

Richard

--
Richard P. Grant  MA  DPhil        University of Oxford
Nuffield Department Obstetrics and Gynaecology      FFPGP
http://users.ox.ac.uk/~lady0266    http://www.molbiol.ox.ac.uk/~rgrant
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