McClean: Anneal and Extend

From OpenWetWare

Revision as of 17:46, 19 September 2012 by Megan N McClean (Talk | contribs)
Jump to: navigation, search



This protocol describes a simple procedure to annealing and extending two oligos (with homology) to get double-stranded DNA.


  • Oligos (25μM; take the standard McClean Lab -80°C stock which is at 100μM in TE and dilute it 1:4 in H2O)
  • Takara PCR reagents (see: Takara PrimeStar PCR)


  1. Dilute oligos to 25μM from the -80°C stock. Dilute into H2O.
  2. For one reaction the PCR mix should be:
    • 10μL 5X Takara Buffer
    • 4μL 2.5mM DNTPs
    • 0.5μL Takara polymerase
    • 1 μL 25μM forward oligo
    • 1 μL 25μM reverse oligo
    • 33.5μL H2O
  3. Run in a thermocycler as follows (notice that we do not use many cycles):
    • 94°C for 5 min
    • Repeat the following three lines 2-3 times:
      • 98°C for 10s
      • 53°C for 20s
      • 72°C for 30s
    • 72°C 5 min


Please feel free to post comments, questions, or improvements to this protocol. Happy to have your input! Please sign your name to your note by adding '''*~~~~''': to the beginning of your tip.

  • Megan N McCleanIt would probably be better to dilute oligos ordered for this purpose into water and not TE pH8 for the -80°C stock. However, I usually forget to do this and diluting from the TE stock 1:4 for 25μM and running the above protocol usually works really well.


Adapted from Maitreya Dunham's protocol ( and the Botstein lab protocol (


or instead, discuss this protocol.

Personal tools