Dear Sangeetha,
Can I assume that you detected the hairpin by computational means? In general a single hairpin may not necessarily doom your experiment or reduce expression - however you could reduce the hairpin stability via silent codon changes just to be on the safe side. Keep in mind that in some cases the presence of specific secondary structure of RNA can be important for proper expression and folding. Alternatively you could try the gene as is and if you encounter trouble you can always change the nucleotides later. Cheers, Artem _____ From: CCP4 bulletin board [mailto:[email protected]] On Behalf Of Sangeetha Vedula Sent: Friday, November 20, 2009 8:03 PM To: [email protected] Subject: [ccp4bb] hairpin formation in gene Dear bb-ers, I am trying to have a gene synthesized and found out that it forms an 11-bp hairpin. Does that complicate expression? Would it be better to try and disrupt it by altering codon usage to improve expression? Thank you in advance, Sangeetha.
