While she was talking to the dispatcher, the boy ran off but was found hiding in a maintenance shed near the unit block a short time later.
"It was just a really disturbing scene," an Ocala Police spokesman told Fox 35 Orlando.
At his first court apperance on Tuesday, the judge ordered him to undergo a psychiatric evaluation before remanding him in juvenile custody until his next hearing.
According to the affidavit, the boy is charged with attempted first-degree murder.
He allegedly told police he stabbed his sister because he "wanted to be able to go outside" and that he came up with the idea of killing her two days before the incident.
"This is a heartbreaking case," police spokesman Corie Byrd told People magazine.
"The Ocala Police Department wishes for the speedy recovery of the victim and appropriate action from the state for the suspect; whether that be detention or assistance, the end goal is for both of these children to be able to return to normal functioning lives within the community."
Byrd said the horror incident was expected to have a lasting effect on the local community.
"I think the best case scenario here is to get this young man some help," she said.
"A lot of people were affected by this, so we're going to see the lasting impact here in this community."
Local media said the boy, who cannot be identified for legal reasons, had been appointed a legal aid lawyer and remained in custody at a juvenile facility.
The boy is due back in court on February 5.