Hypochlorous acid (HOCl) is a significant reactive oxygen species within biological systems, and its anomalous metabolism has been linked to a range of diseases. Therefore, it is crucial to track and monitor the concentration of HOCl in living organisms to understand its biological functions and study its pathogenic mechanisms. In this study, we developed a photoinduced electron transfer (PeT) mechanism-based benzo-fused bodipy fluorescence probe, named BBy-Se, for highly sensitive and selective detection of HOCl in aqueous solutions. BBy-Se demonstrated a good turn-on fluorescence response to HOCl by specifically oxidizing the selenium atom. It exhibited significant Stokes shift (82 nm), low detection limit (10.9 nM) and rapid response (less than 10 s). Furthermore, the probe was successfully employed for real-time fluorescence imaging of HOCl in living HeLa cells and zebrafish, as demonstrated by the bioimaging results. The development of BBy-Se presents a new approach to explore the biological roles of HOCl and offers a valuable tool for studying its function in diseases.