European football governing body UEFA announced the sanction on Friday, adding that the club would also face a partial stadium closure.
The Spanish club earlier said it had asked its disciplinary committee to begin an immediate expulsion procedure against the member identified performing the gesture.
According to the club, the supporter was identified by security staff shortly after appearing on the broadcast and was immediately removed from the Santiago Bernabéu Stadium.
UEFA also ordered the partial closure of 500 seats in the lower south stand of the stadium for one match, although the punishment had been suspended for one year.
Real Madrid won the match 2–1 and advanced to the round of 16 with a 3–1 aggregate victory.
They will face Manchester City in the next round of the competition. (Reuters/NAN)