Misasagi' originally referred to an emperor's graveyard, and the area around the station is known by that name due to the fact that the Imperial Tomb of Emperor Tenchi is located approximately 300 meters north of the station.
「御陵」とは天皇の墓所のことで、この地名は駅の東300mほどに天智天皇山科陵があることに由来する。