Primer design

[Georg Wilhelm Otto]

Hi all!

I have a problem concerning PCR primer design. I have a lot of 
sequences of very different length and I want to design PCR primers to 
all of them within a given maximum distance from the 3-prime end - say 
500 bp. I don't want to have to look at all the sequences because  it 
is a lot. Primer3 does not seem to support this, it lets you only 
define ranges from the 5-prime end. Does anyone know how it could be 
done in Primer3 or how it could be done using another primer design 
software?

Of course there is the obvious solution to revert the sequences and 
then define the distance from the 5-prime end, but i don't want to do 
this.

Thanks a lot!

Georg
-- 
Georg Wilhelm Otto
Max-Planck-Institute for Developmental Biology
Spemannstrasse 35/III
D-72076 Tuebingen Germany
phone: +49 7071 601 301
http://www.eb.tuebingen.mpg.de