The influence of higher dimensions in noncommutative field theories is considered. For this purpose, we analyze the bosonic sector of a recently proposed 6 dimensional SU(3) orbifold model for the electroweak interactions. The corresponding noncommutative theory is constructed by means of the Seiberg-Witten map in 6D. We find in the reduced bosonic interactions in 4D theory, couplings which are new with respect to other known 4D noncommutative formulations of the Standard Model using the Seiberg-Witten map. Phenomenological implications due to the noncommutativity of extra dimensions are explored. In particular, assuming that the commutative model leads to the standard model values, a bound -5.63 10^{-8} GeV^{-2}< theta <1.06 10^{-7}GeV^{-2} on the corresponding noncommutativity scale is derived from current experimental constraints on the S and T oblique parameters. This bound is used to predict a possibly significant impact of noncommutativity effects of extra dimensions on the rare Higgs boson decay H-> gamma gamma.
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