The story of Freezing takes place in a future where humanity is under constant threat from the alien Nova species. Young women like Satellizer el Bridget, known as Pandoras, and young men like Kazuya Aoi, known as Limiters, are trained at military academies to fight against the Novas. Kazuya, who mistakenly identifies Satellizer as his deceased sister, becomes her Limiter and they form a partnership that must navigate the challenges of their upperclassmen and the looming threat of the Novas.