Probably not with the software you have. I tried this with my Olympus and was unable to find a way to rotate the movie clip. I tried importing it into iMovie but there still was nowhere to rotate the entire clip.
It may be possible in video editing software like Final Cut Pro or Final Cut Express.
I Took a QT Movie with my Nikon 8700 holding the camera sideways so that the movie plays sideways on my computer.
Is there a way to rotate this movie 90 degrees CCW?
I have PhotoShop CS, Elements 2, Toast and the Nikon Picture Project.