In 2008, Sequeira was appointed manager of Portuguese third division side Arcos de Valdevez after managing the youth academy of Braga in the Portuguese top flight.
In 2013, Sequeira was appointed manager of Portuguese second division team Trofense.
After that, Sequeira was appointed youth manager of Al Nassr in Saudi Arabia.
In 2021, he was appointed manager of Uzbekistani side Lokomotiv (Tashkent).
[1] This biographical article relating to Portuguese football is a stub.