Design of endonuclease restriction sites into primers for PCR cloning

Summary: I present a software system PCRCLNG that facilitates the design of endonuclease restriction sites into the 5′-end of PCR primers. The product amplified using these primers can be directly cloned into vectors. The program estimates the annealing temperature for each primer and selects the primer pairs with comparable annealing temperature. Finally the software determines whether the PCR product can be cloned into the vector to generate in-frame gene fusion.