A second half substitute, the 21-year-old scored just four minutes into his introduction to hand the home side a 2-1 triumph.
It is the youngster's second league goal for the club, having registered his first in a 2-2 draw with Real Madrid last month.
On Friday, Levante took a one-goal cushion in the 25th minute when Luis Morales set up Roger Marti for the opener.
The visitors hit back in the 63rd minute through Charles on the assist of Joan Jordan.
Coach Paco Lopez then threw on Boateng on the hour-mark, and what an introduction that was, as the striker, in his 19th La Liga game, scored what ultimately turned out the match winner.
Despite the result, Levante still sit one place above the relegation zone on the league table.
Boateng joined The Frogs from Portuguese side Moreirense on a four-year deal last summer.
From Ghana, he initially joined Portuguese Rio Ave in 2013, before moving Moreirense in 2015.
Yet to be capped by Ghana at senior level, the attacker was a member of the Black Satellites side at the 2015 Fifa Under-20 World Cup in New Zealand.