Board Thread:Boruto Discussions/@comment-25319479-20160502145551/@comment-1005735-20160504224004

@UltimaDude The eye markings came from Boruto's tattoo, Kawaki has the same marking from his but retains his normal eye.

Given the significance of showing the eye itself opening in its own panel, its safe to assume that the eye is special and likely because of its resemblance and Boruto's heritage likely a Byakugan.