The game was played at the Centro de Futebol Zico, the academy of FC Goa's head coach Zico, here on Thursday, according to a release.
It was FC Goa's second pre-ISL practice match in Brazil where they are currently training.
They were beaten by to Bangu Atletico Clube in the first practice game.
They will take on Rio Branco AC on September 18 in their third friendly match.
The team will return to India on September 25 ahead of their opening match on October 4, in the third edition of the tournament.