Rape and sexual assault against women can indeed be classified as hate crimes, although the term was generally intended to include only crimes targeting victims of a certain race, color, religion, and national origin.  However, these days in the United States and elsewhere, it has been expanded to include gender and sexual orientation as well.  But just looking at the United States alone, you will find some variation in the groups included, for example, a specified age range (either very young, or very old, or both) being listed by some states but not others.

Some authorities would also merge certain categories depending on the circumstances.  Off the top of my head, I'd say the reported systematic mass rapes of women during the Yugoslav Wars of the late 20th century could be termed a hate crime involving both religion and gender, though the term genocidal rape is a more universally accepted term.