“There were problems between Watford and Marseille on a transfer. Fifa has suspended him,” said Cisse.
Midfielder Gueye started his career at Le Havre and was due to become a free agent in the summer of 2020.
In April of that year, he signed a pre-contract with Watford before changing his mind and agreeing a deal with Marseille.
He has since appeared 61 times for the Ligue 1 club in all competitions.
The 22-year-old came off the bench for Senegal in their opening game in Cameroon on Tuesday but did not figure in Friday’s 0-0 draw with Guinea.
“Until we appeal, he cannot play with us. We knew it in reality five minutes before the kickoff,” said Cisse after the match.
Paris Saint-Germain midfielder Idrissa Gana Gueye tested positive after the fixture.
Senegal face Malawi on Tuesday in the last round of group games needing a draw to be sure of advancing to the round of 16.
Born in France, Gueye played for France at under-18 and under-19 level before opting to represent Senegal, where his parents are from, last October.
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