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Jonathan and his teacher, 53-year-old Karen Elaine Smith, were shot by Smith's estranged husband, 53-year-old Cedric Anderson.
Jonathan and another student, 9, were rushed to an area hospital. Jonathan died before making it to surgery, while the 9-year-old was reported to be in stable condition after initially described to be in critical condition.
PHOTOS: San Bernardino elementary school shooting
Police said the children shot were not targeted and were likely struck by accident.
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The shooting happened in a special needs classroom that included students from grades 1-4. At the time, the room held 15 students, one teacher and two adult aides.
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Jonathan's family set up a GoFundMe account for funeral expenses. To donate, visit https://www.gofundme.com/jonathan-our-family-angel-ngeljonathan.