The basidiomycetous yeast Ustilago shanxiensis CBS 10075, which was isolated from a wilting leaf in China, produces mannosylerythritol lipid (MEL) biosurfactants. Here, we report the draft genome sequence of U. shanxiensis CBS 10075, which was 21.7 Mbp in size, with a GC content of 52.55%, comprising 65 scaffolds.