^^ If this is an indication of where she ended up, then I would surmise that her engine-heavy tail is resting on the bottom, leaving her at the steep slant we see in the movie. A quick check of nautical maps shows the depths there in the 50-100 foot range, with some spots shallower.
One would think they'd beam it up to keep as a museum piece, after all it was instrumental in saving their collective butt. Plus a beam up could probably clean it up as the same time. (if a transporter can filter out viruses, surely it can also remove dirt even more easily. )