BSP primers - (Jun/30/2009 )
hi all,
I'm new to the filed of epigentics and a bit confused. I have a few basic queries.
1) what is a degenerate primer?
2) Is it necessary to include a CpG island in BSP primers?
3) I have the promoter sequence of the gene. Is it o.k, if i design BSP primers considering the sequence as the templete, irrespective of the fact that it is the sense or the antisense strand?
If anyone could help....it will great... 
Regards,
Prakruti
to:
2). If you include a CpG in your primer sequence you are running no longer a BSP- but a MSP-PCR! BSP = Bisulfite Specific PCR, MSP = Methylation Specific PCR
3). It doesn't matter which strand you use for designing your primer, the methylation-information should be the same on both strands.
Hope that helps...
MoB
MoB on Jun 30 2009, 11:54 AM said:
2). If you include a CpG in your primer sequence you are running no longer a BSP- but a MSP-PCR! BSP = Bisulfite Specific PCR, MSP = Methylation Specific PCR
3). It doesn't matter which strand you use for designing your primer, the methylation-information should be the same on both strands.
Hope that helps...
MoB
MoB thanks a lot...