It is the 23rd century; the Earth has shattered into billions of pieces which orbit around a central core. In this new world named Skyland, an evolved form of humans has appeared: Seijins, who are able to absorb energy from sunlight and use it to fuel special abilities such as telekinesis, telepathy, mental control, astral projection, energy balls or blasts and electricity rays.

The Skyland is ruled by the Sphere, an organization which controls the fragmented blocks water supplies and maintains its power thanks to Guardians - promising Seijin children who have been taken away from their families and given a special training. This dictatorship is fought by pirates.

After the capture of their mother by the Sphere in 2251, Mahad and Lena, a young Seijin still learning to control her powers, are rescued by a group of pirates. They join the pirate rebellion, determined to free their mother and help bring the Sphere down.