Lee was a member of the under-16 team that won the 2009 AFC U-16 Women's Championship and was in the under-17 squad that claimed the FIFA U-17 Women's World Cup the following year. She made two appearances at the 2011 AFC U-19 Women's Championship, scoring two goals against Australia in a 4–2 win. In 2013, she helped South Korea win the 2013 AFC U-19 Women's Championship and qualify for the 2014 FIFA U-20 Women's World Cup. Lee was selected by Korea for the 2015 Women's World Cup and the 2019 Women's World Cup.