The 23-year-old defender, who qualifies as a home-grown player having joined the club's youth set-up in 2006 at the age of 16, made his City debut in 2010 and featured in six games in all competitions this season.
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City are thought to have kept the Belgian on in order to boost the number of home-grown players in their squad - as Financial Fair Play sanctions handed down by Uefa limit their spending capabilities in the upcoming transfer window.
Premier League clubs must include eight home-grown players in their squad of 25 for the season.
A player qualifies if he has been with the club for a period of three entire seasons, or 36 months, prior to his 21st birthday or by the end of the campaign in which he turns 21.