QUOTE (noelmathur @ Nov 14 2009, 01:12 PM)

I am still wondering why would you dsign primers with such high Tm (I would like to know) I would go bit more, around 69C. The best option is run a gradient with 10 microliter PCR reaction to see what will work.
My primer has a high melting temp because i need to amplify a ORF and the suggested bp to include is 18-22 and i also need to add 10 his and a restriction site for insertion into another vector. I have tried using a gradient centered at 65 C with 5 reactions. So the annealing temp was at 55, 60, 65, 70, and 75. The result: no amplication of my desired 700bp fragment. I only saw primer dimers
I used 2 ul of 10uM Primers. Should i decrease the primer added to either 1.5ul or 1ul? Should i increase template DNA?
Another reason that the pcr failed might be that i mixed all the pcr reagents the day before and kept them at -20 and then the next day, added the DNA template. Will this have an effect?
Thanks