Amer made his debut with national teams, when he was selected for United Arab Emirates national under-17 team at international tournament in 2006. He won the AFC U-19 Championship 2008 with United Arab Emirates national under-20 team, he was also part of the squad at the 2009 FIFA U-20 World Cup in Egypt. In 2010, he helped the Olympic team win the 2010 Gulf Cup of Nations Under 23 in the Qatar, and was named Player of the Tournament. At the same year won silver medal in Asian Games in China.