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Implantable electronic tags are crucial for the conservation of marine biodiversity. However, the power supply associated with these tags remains a significant challenge. In this study, an underwater flexible triboelectric nanogenerator (UF-TENG) was proposed to harvest the biomechanical energy from the movements of marine life, ensuring a consistent power source for the implantable devices. The UF-TENG, which is watertight by the protection of a hydrophobic poly(tetrafluoroethylene) film, consists of high stretchable carbon black-silicone as electrode and silicone as a dielectric material. This innovative design enhances the UF-TENG’s adaptability and biocompatibility with marine organisms. The UF-TENG’s performance was rigorously assessed under various conditions. Experimental data highlight a peak output of 14 V, 0.43 μA and 38 nC, with a peak power of 2.9 μW from only one unit. Notably, its performance exhibited minimal degradation even after three weeks, showing its excellent robustness. Furthermore, the UF-TENG is promising in the self-powered sensing of the environmental parameter and the marine life movement. Finally, a continuous power supply of an underwater temperature is achieved by paralleling UF-TENGs. These findings indicate the broad potential of UF-TENG technology in powering implantable electronic tags.