Board Thread:Naruto Discussions/@comment-5413572-20141206200019/@comment-26112212-20141229112833

I think the Tailed Beasts which were sealed inside Hagoromo might be the cause for Indra obtaining the Sharingan, it might be one of the reason because the Ten-Tails had Rinne Sharingan or may be the red colour Rinnegan on Hagoromo's forehead was passed on to Indra (which is more direct). The descendants of Hamura and their Byakugan was unchanged because it did not have tail beast influence. I'm sure this must be the case because Kaguya's original power must have been Byakugan and she was alien, after consuming the fruit the power might have developed into Rinne Sharingan on her forehead, I like your theory though that there was a total eye that was like Rinne Sharingan without red colour but I don't think so that the "Total eye" would be a prerequisite for Rinne Sharingan that would be like just adding red colour it just looks like Sasuke's Rinnegan lacking in three tomoe and yes it contradicts canon, from the start it would be red in canon that's what I think. Whatever that may be I don't know as anything could happen in Naruto world because Naruto made one eye for Kakashi, so her case may be the same as Kakashi and because Kaguya was introduced I think the story doesn't end here may be it is a sign for things to come, just like new Dojutsu Tenseigan was introduced in "The Last". Also just like her eye powers were divided into two and transferred similarly her powers of her body counterpart must be transferred, although I have no idea how her powers are divided, I'll just assume that All Killing Ash bones and ability for travelling through dimension was passed on to Hamura, and  her Regeneration abilities like developing arms, body parts was passed on to Hagoromo, so that Hamura travels to moon and Hyuga and Kaguya clans are descendant of Hamura Otsutsuki and Asura and Senju clan might have those healing powers. I hope that her origins will be explored in more detail in anime; the manga was bit rushed.

EDIT: Also I was wondering why Sharingan remained constant for generations just like Byakugan why did it not transform into Rinnegan, the reason could only be chakra (just like in biology epistasis, the Rinnegan gene is masked by Sharingan gene and only Asura chakra can help in regaining Rinnegan) or may be it's not related to biology, also Indra's mangekyou was unique it transformed into spiral looked similar to Rinnegan unlike other mangekyou that develops into tomoe variants, these are the things that are bugging me