In the Holy of Holies in the rebuilt temple...even though the rebuilt temple might not be rebuilt exactly where the Dome of the rock is now....!
The temple will be rebuilt...only tradition says it will be rebuilt over the Dome of the rock...there is no verse in the Bible that says it will be rebuilt where the Dome of the Rock is now. The Temple could be rebuilt off to the side at the place of the wailing wall.
Or over that mosque that fell during an earthquake. Those verses allude to the Temple being rebuilt right where it used to be as God directed.