Primers

[nokok]

I found that some paper shown the primers like this " 5'-AGA GAG AGA GAG AGA GYT-3' " and
"5'-AGA GAG AGA GAG AGA GYC-3' "

GYT and GYC is collect or not? and possible be?

Thank you for your answer

[blcr11]

The "Y" usually means any pyrimidine. So each primer is probably a mixture of two. For the first primer the two possible end sequences would be GTT and GCT; for the second primer they would be GTC and GCC. I don't know if that makes sense. You'll have to put that in the context of what they were trying to do.

[canalon]

I second blcr11's answer. it is usually used when you have a polymorphism in your target and the PCR is designed to amplify all the possible forms.
For information from the sigma genosys website, here are the possible degeneracies and their codes:
M=A+C_________D=A+G+T
R=A+G_________B=C+G+T
W=A+T________N=A+G+C+T
S=C+G_________I=deoxyinosine (will pair with all 4)
Y= C+T________U=deoxyuridine (will replace T like in RNA)
K=G+T
V=A+C+G
H=A+C+T

[nokok]

Thank you every much " blcr11" and "canalon".
Your 's answers give me understand.