If you’re using Traktor (which can’t do more than one BPM in a track) what I do is beat grid the track to the second (after transition) BPM, so I`ll set the beat marker on the first downbeat at the new transitioned BPM. I do this because it’s probably easier to manually beat match the intro to your current BPM (probably won’t be more than a few BPM off), then you can sync back in after the transition and go from there.