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Cain Lee was said to have been playing for the Shamrocks weeks ago when he had to be taken to the hospital from an injury and have surgery.
The Southwest Football League said Cain was in a coma until he passed away last week.
"Our hearts go to the family during this unimaginable tragedy," the organization said in a letter to parents.
The Professional Baseball Academy shared on social media that Cain was also a part of its team, adding that he was "a selfless kid who cared more about everyone else and how they did then how he performed."
SFL said teams will be taking a moment of silence before each remaining game of the season in Cain's memory.