Biothiols, including cysteine (Cys), homocysteine (Hcy), and glutathione (GSH), play key roles in biological processes, and detecting such thiols selectively is critical for understanding functions of biothiols. In this work, a pyridazine annelated perylene-based fluorescent probe PAPC is synthesized for highly selective detection of Cys. PAPC exhibits strong blue emission in PBS, while the red emission at 605 nm can be observed in the presence of Cys. The probe PAPC shows ratiometric fluorescence (I605/I460) detection of Cys with wide linear range of 1-120 μM and low detection limit of 0.19 μM. Super large Stokes shift (170 nm) and ratiometric fluorescence endow the probe low background signal. The discrimination of Cys over Hcy and GSH can be achieved through the difference of the ratiometric fluorescence. In addition, the probe has been proven to track Cys in real samples such as urine and HeLa cells. Therefore, PAPC probe is a promising candidate for detecting Cys in practical application. Graphical abstract.