The boy allegedly broke into a home in the 1100-block of North Center Street just after 8:40 a.m. last Wednesday, police said.
When police arrived on the scene, the boy appeared to walk toward them with a gun, and an officer shot him, according to police.
A BB gun was later recovered.
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The teen was hospitalized before being taken to the River Valley Justice Center on Friday on home invasion, residential burglary and aggravated assault charges.