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We still don't know the origin of the rinnegan but if you ask me i'd say the juubi wasn't the origin of the rinnegan.
I don't think his body was stronger than his eyes hereYou must be registered for see links
we see madara saying he'll improve the power of his eyes by becoming the juubi junchuruki and cast a powerful genjutsu on the world. It shows that becoming a junchuruki can improve the users eyes... Where am i going with this you may ask...? Simple, the sage eyes were improved when he became the juubi junchuruki... It's a possibility that there's another stage of the sharingan after the rinnegan or the sage acquired the rinnegan after becoming the juubi junchuruki which i think is unlikely because madara have acquired rinnegan without having the juubi.
I doubt very much the sage got all he got through genes, he was the original one, he got the Juubi sealed on him and the passed down what he got to his line. Really is the only explanation to Rinnegan and such it wouldnt make more sense simply say "RS was born with Rinnegan" it would shed zero light on its origin at least Juubi would shed light in the origin of the doujutsus and why they are so foul in nature (killing your brother, etc).