This is like a omegaverse. If he is intersex why he hadn't a vagina?

His uterus is probably connected to his anus, let's just leave it this way.

He could be hermaphrodite or something like that. I presume from what the story said, he was born with a biological anomaly. So i guess his uterus is connected to his rectum, and in the womb it didn't develope a vagina entrance.

The bigger question though, does he have menstruation?

Well said...i mean its a fictional story...dont necessarily have to make 100% sense

I presume it's pmds

Yep. So many questions...