In 2005 and 2006, he helped El Nacional win two national championships, tying the club as the most successful team in Ecuador.

[1] He is a starting key player and due to his solid performances he was called up to the national team.

On December 12, 2008, Quiñónez signed with Primera Division de Mexico's Santos Laguna from Torreón, Coahuila, for an undisclosed amount.

On January 14, 2010, Quiñónez was transferred on a loan with an option to buy to Ecuadorian giants Emelec.

In November 2011, Quiñónez was finally bought by Emelec, after paying the transfer to Santos Laguna.