The Iranian prodigy will likely move to Basel in the summer.
English Premier League champion Leicester City had already showed interest in signing the 18-year-old player.
In 2015, Shakeri was named by The Guardian as one of the best 50 young talents in world football.
He joined Zobahan on a three-year contract in 2015 and made his debut for the Isfahan-based team in Iran Professional League against Sepahan.
Shekari scored his first professional goal on 4 November 2015 in a 2–0 Hazfi Cup victory against Persepolis.