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Abstract As a process of cellular uptake, endocytosis, with gradient acidity in different endocytic vesicles, is vital for the homeostasis of intracellular nutrients and other functions. To study the dynamics of endocytic pathway, a membrane‐anchored pH probe,ECGreen, is synthesized to visualize endocytic vesicles under structured illumination microscopy (SIM), a super‐resolution technology. Being sensitive to acidity with increasing fluorescence at low pH,ECGreencan differentiate early and late endosomes as well as endolysosomes. Meanwhile, membrane anchoring not only improves the durability ofECGreen, but also provides an excellent anti‐photobleaching property for long‐time imaging with SIM. Moreover, by taking these advantages ofECGreen, a multidimensional analysis model containing spatial, temporal, and pH information is successfully developed for elucidating the dynamics of endocytic vesicles and their interactions with mitochondria during autophagy, and reveals a fast conversion of endosomes near the plasma membrane.