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Several sorting nexin (Snx) proteins have established roles in the endosomal network, but the function of many members of this phospholipid\u2010binding protein family such as Snx21 is still poorly investigated. Here, we show that Snx21 binds to the phospholipid PI(3)P enriched in endosomal membranes, and it localizes to the endosomal system in various Drosophila tissues. We find that Snx21 also binds to and colocalizes with flotillins in Drosophila. We propose that overexpression of Snx21 facilitates endocytic trafficking toward late endosomes\/lysosomes leading to a large increase in the size of late endosomes, which requires Flotillin2. In parallel, Snx21 is required for multiple alterations caused by Flotillin2 overexpression: both the intracellular accumulation of Wingless\/Wnt morphogen and ectopic wing vein formation that are induced by Flotillin2 overexpression in the developing wing depend on Snx21. 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