It could be The Abyss (1989).
Here is a picture of the stingray alien:
Another shot of the blue, stingray-like underwater aliens:
Here is a shot of Ed Harris, standing in the undwerwater chamber and communicating with the aliens:
You can watch the complete movie here (quality is not the best, the picture is intentionally distorted to avoid deletion from Youtube due to copyright reasons):
Near the end of the movie, starting ca. at the 2:04:00 mark, the underwater aliens save Ed Harris' character and bring him to a room in their submerged base/ship. In that room Harris communicates with the aliens.
There are several submersibles in the movie. There is a scene in the movie where after a prolonged underwater duel between two submersibles, one is manned by Ed Harris and Mastrantonio, the other is manned by the mad Navy Seal (played by Michael Biehn), the good guys manage to push the crazy SEAL's damaged submersible into the abyss, and after a short descent the enormous water pressure pulverizes the submersible. The desctruction of the submersible starts ca. at the 1:35:14 mark.
"Bud fights Coffey but Coffey escapes in a mini-sub with the primed
warhead, and Bud and Lindsay give chase in the other sub. Coffey is
able to launch the warhead into the trench, but his sub is damaged and
drifts over the edge of the trough, and he is crushed when the sub
implodes from high pressures."
You can read a detailed plot description for the movie on Wikipedia here: