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We provide the first solution to the problem of counting rooted 3-connected bipartite planar maps. Our starting point is the enumeration of bicoloured planar maps according to the number of edges and monochromatic edges, following Bernardi and Bousquet-Mélou [J. Comb. Theory Ser. B (2011)]. The decomposition of a map into 2- and 3-connected components allows us to obtain the generating functions of 2- and 3-connected bicoloured maps. Setting to zero the variable marking monochromatic edges we obtain the generating function of 3-connected bipartite maps, which is algebraic of degree 26. We deduce from it an asymptotic estimate for the number of 3-connected bipartite planar maps of the form t · n−5/2γn, where γ = ρ−1 ≈ 2.40958 and ρ ≈ 0.41501 is an algebraic number of degree 10.