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For the 2025-26 school year, there are 4 public schools serving 2,196 students in Johnson City, NY (there are , serving 257 private students). 90% of all K-12 students in Johnson City, NY are educated in public schools (compared to the NY state average of 85%).

The top-ranked public schools in Johnson City, NY are Johnson City Senior High School, Johnson City Middle School and Johnson City Elementary/intermediate School. Overall testing rank is based on a school's combined math and reading proficiency test score ranking.

Johnson City, NY public schools have an average math proficiency score of 32% (versus the New York public school average of 52%), and reading proficiency score of 36% (versus the 49% statewide average). Schools in Johnson City have an average ranking of 2/10, which is in the bottom 50% of New York public schools.

Minority enrollment is 50% of the student body (majority Hispanic and Black), which is less than the New York public school average of 60% (majority Hispanic).