I don't think they even report out on the profitability of individual apps. In fact, I don't think they report on software profitability
at all: the categories they report out on are Mac, iPhone, iPad, Wearables, and Services.
No one outside of Apple has any real visibility into how "profitable" any individual app they make is, so I can't imagine this is a factor in why they don't charge themselves the 30% cut. In fact, I don't think there's even any way for us to know if they do—or if there would be any meaning to it if they did (ie, would the 30% even go to a different internal account?).