It is alleged the suspect is a known serial defiler who lures teenagers into his sexual escapades
Okumu denied the accusations before Principal Magistrate Stephen Mogute, who heard the case in camera since it involved a minor.
The victim's mother claimed the school's administration had tried to interfere with the case.
"The incident took place last term but I learned about it when my daughter narrated the story this month," she said. "I took her to hospital for a check-up and it was confirmed that she was defiled."
The woman said this case was not the first against the teacher.
"The suspect is a known serial defiler who lures teenagers into his sexual escapades."
The suspect was arrested on May 9 by detectives from Bungoma police station.
He will he held at this station until June 4 when the case will be heard.