X-Men: Evolution

Wolverine suddenly vanishes, as the Brotherhood members team up with the X-men to defeat Magneto. They take off to fight him, leaving behind the new recruits. As soon as the ships take off, the institute goes into self-destruct mode. Before it can close off the doors, Amara gets out and is narrowly saved by Tabitha from the institute's weapons. They find Scott, who stayed behind because he felt too angry to stay with the team, and enter the mansion to help the others out. But as they reach the control room, the clock is counting down from 10 seconds....