The homogeneous/inhomogeneous structure of glasses is still a debated question. Hydrostatic high pressure experiments allow us to determine if a glass behaves as an elastic continuous random network or if a nanometer scale heterogeneity has to be taken into account. In order to get information on the homogeneous/inhomogeneous structure of glasses, in situ high pressure Raman experiments are performed on silica in the elastic domain up to 4.7 GPa. A strong decrease of the Boson peak intensity is observed between 1 bar and 3 GPa. We show that this decrease does not correspond quantitatively to the effect of pressure on a homogeneous elastic medium. From the interpretation of the narrowing of the main Raman band width under pressure as a narrowing of the θ inter-tetrahedral Si–O–Si angle distribution it is shown that the decrease of the Boson peak intensity is correlated to the decrease of the intrinsic inhomogeneity of the silica glass. These results confirm the occurrence of an intrinsic inhomogeneity at a nanometer scale even in a single component glass like SiO2 which is very important for the interpretation of the optical or mechanical properties of the glasses.