The Mystique of the cartoons and especially the movies is not the same character as that of the comics. The closest portrayal was possibly in X-men: Evolution, where, IIRC she was the leader of the high school "brotherhood" posing as the principal.
To me, Mystique is very much the female Logan with her bad-assness and convoluted extended history. She's occupies the same grey area as Magneto and I hate it when she gets played as a straight out villain. That's not what she's about.