In the alternate universe, "Jared" and "Jensen" don't talk to each other. In real life, Jared Padalecki and Jensen Ackles are best friends and were each other's groomsmen. Jared Padalecki (Sam) and Jensen Ackles (Dean) have both said that they were skeptical at first about 'playing themselves'.
However, even though Dean was one of Rory's more important romantic interests, he didn't appear on the CW series after Season 5. His surprising absence had a lot to do with the actor who played Dean's character, Jared Padalecki, and his career trajectory, which led him to another CW project.