Hmmm, well, I am thinking it is indeed my transmission. I stepped on it, all the way down, and going into 3rd gear, my car was slow on shifting, then jerked really bad going into gear..it made my tires squeal. That time it was more of an insane jerk, not like the normal loud vibration. Im going to check the tranny fluid again.
Edit: Well, the transmission fluid looks perfectly fine, but it smells like rubber, don't know if that's normal.