Loop sequences - siRNA hairpin loop sequences (Feb/18/2005 )

Can anybody suggest best loop sequence for my small hairpin RNA ?
ashwin

Ah loop sequences - the holy grail of shRNA design... I'm afraid different loop sequences work differently with different shRNAs. For the sequence we recommend and to generate your sequences goto
http://www.expresson.com/shrnagenerator.html

hi
you can see the sequence from brummelkamp et al.Science 296, 550-3
you can see the paper of denti et al Mol Ther. 2004 Jul;10(1):191-9.

I first try the one from brummelkap and al and recently chaged for the one from denti and al. without changing my siRNA sequence. That works correctly in both cases.

Fred