Penile agenesis
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Penile agenesis is a very rare birth defect in humans, occurring about once in 20 million births, where a male child is born without a penis. It is also known as aphallia [from the Greek, "a" for negative or no, and "phallia" for penis]. Most patients have no known family history of aphallia, and often have a normal male anatomy, save for the absence of the penis.
Treatment is pyschological, surgical, and often, sex reassignment surgery is performed.
Quentin Costa had a similar problem in series 3 of Nip/Tuck