He went on to assert that Israeli police had promised earlier to suspend such visits by Jewish settlers during the last 10 days of Ramadan, the Muslim fasting month, which will come to an end in the first week of July.
Netanyahu asked Ban to use his final six months in office to rectify what he called the United Nations' unfair treatment of Israel.
He added that Israeli forces chased Palestinian worshippers and beat them with batons, shut the doors of the al-Qibli Chapel, and fired rubber bullets as well as tear gas canisters to scatter the people who were protesting the desecration of the mosque.
However, for the past several years, Jewish worshipers and foreign tourists have not been allowed inside the compound during the last ten days of Ramadan, as the days are particularly sacred to Muslims, according to the Director of the Islamic Endowment and Al-Aqsa Mosque affairs Sheikh Azzam al-Khatib.
As a result, police made a decision to close access to Jewish worshippers and other visitors for the remainder of the week to prevent tensions with Muslim worshippers until Ramadan is over.
Israeli police said officers at the Old City site revered by Muslims and also by Jews - who call it the Temple Mount - arrested four "masked youths who were disrupting visits on the Temple Mount" by non-Muslims.
Violence since October has killed around 210 Palestinians, at least 32 Israelis, two Americans, an Eritrean and a Sudanese.
Spokesman of the Palestinian government, Yousef al-Mahmoud, held the Israeli government fully responsible for its offensive in al-Aqsa, saying the Israeli offensive in al-Aqsa represents a violation against the religious, political and historical rights of the Arabs and Muslims.
Despite this agreement, the Israeli authorities regularly allow Jewish visitors to enter the site - often under armed guard. "The occupation forces sealed Al Qibli Mosque with steel chains to prevent the Muslims inside the mosque from standing in the way of the colonists' incursions and defending the holy shrine", he said.