If I have a DNA single strand like this 5' - TACGGTAGGTC-3' what will be the primer required for PCR (this primer should have only 5 nucleotides)

Question

If I have a DNA single strand like this 5' - TACGGTAGGTC-3' what will be the primer required for PCR (this primer should have only 5 nucleotides)

Answer 1

To design a PCR primer for the single-stranded DNA sequence you provided (5' - TACGGTAGGTC - 3'), we typically design primers that are complementary to the target sequence. For a primer that is 5 nucleotides long, we can choose a section from the sequence.

One option is to take the first 5 nucleotides from the 5' end:

5' - TACGG - 3'

However, if you want the primer to anneal to the complementary strand during PCR, the complementary sequence would be:

3' - AUGCC - 5'

But when writing it for PCR, we present it in the 5' to 3' direction:

5' - CCGTA - 3'