Ten children were among the casualties, the ministry underlined.
Dozens of young men walked towards the fence and set fire to tires while some climbed the fence and raised the Palestinian flag.
Thousands of citizens were participating in a mass rally called for by the Palestinian factions in the Malaka Square area to mark the fifty-second anniversary of the burning of the Al-Aqsa Mosque.
IOF announced the reinforcement of its forces on the borders of the Gaza Strip in anticipation of confrontations with the Palestinians.