Futaba Okeya is a 14-year-old boy who can see ghosts and always keeps a prominent birthmark on his left cheek hidden under a bandage. One day, a new student named Kouko Ishigami joins his class, marked by a scar on her forehead and followed by the spirit of a tall, friendly man.
Futaba feels an instant attraction to Kouko, thinking it might be love at first sight. After a disturbing dream about her, he wakes up crying and senses a deep familiarity, which drives him to try to befriend her. However, a series of events leads Futaba to reveal his birthmark to Kouko, causing her to declare him her eternal enemy. Enraged, Kouko explains that they are connected through reincarnation, and the birthmark is a curse she placed on him in a past life to identify and ultimately defeat him.
Kouko then summons a flaming circular device called the "spirit circle" and attacks Futaba, sending him tumbling down a staircase into the memories of one of his former lives. The story of Spirit Circle follows Futaba as he journeys through his various past lives, gradually uncovering the truth behind his conflict with Kouko.