The headteacher of Nandingwa Primary School in the Bukusu South Ward of Bumula, Bungoma, was on Wednesday charged with defiling a Standard Seven pupil.
Mr Pius Sifuna, 51, was also charged with caressing and touching the private parts of the 15-year-old in his office early this month.
However, Mr Sifuna denied the charges and was released on a Sh200,000 cash bail with a surety of the same amount.
The prosecution was granted more time to carry out an age assessment of the minor at Bungoma Referral Hospital.
The case will be mentioned on February 26 and heard on March 20.