BSP primers for methylation detection

[eul]

Hello everyone,
I want to detect the methylation status of a promoter region. I have already designed the primers with the Perlprimer program for a BSP PCR. The thing is that the forward primer as designed by the program contains a C site that I want to see if is methylated or not. The primer is complementary to the un methylated sequence but if the sequence is methylated will the primer still be able to attach?



Thanks!

[admin]

Hello Eul,
have you determined where the CpG islands are?

the C may not be methylated if it is in not in a cpg island.

CpG Analysis is here:
Bioinformatics- Epigenetics and Methylation > CpG Island Prediction and Search


There is some BSP primer help here:
MethPrimer Help

Please let me know if you get the answer

[eul]

Yes, the C is in a CpG island. Precisely, in the methylated target sequence is C and in non methylated sequence that C is T as supposed to be. My forward primer is complementary to the non methylated sequence. But in case of that C is methylated will the primer attach to the sequence?