THE European Commission has noted “problematic points” in Boris Johnson ’s Brexit proposals.

In a letter European Commission president Jean-Claude Junker, the Prime Minister proposes an all-island regulatory zone on the island of Ireland which will cover all goods, including agri-food.

That means Northern Ireland, effectively, staying in the single market for goods, but leaving the customs union.

Responding, the Commission said in a statement: "President Jean-Claude Juncker spoke to Prime Minister Johnson on the phone this afternoon. The Prime Minister informed the president about the contents of the UK's latest proposal – which includes a legal text, explanatory note and letter from Prime Minister Johnson.

"President Juncker welcomed Prime Minister Johnson's determination to advance the talks ahead of the October European Council and make progress towards a deal.

"He acknowledged the positive advances, notably with regards to the full regulatory alignment for all goods and the control of goods entering Northern Ireland from Great Britain."

READ MORE: Boris Johnson reveals Brexit proposals in letter to the EU

The letter continues: "However, the president also noted that there are still some problematic points that will need further work in the coming days, notably with regards to the governance of the backstop.

"The delicate balance struck by the Good Friday Agreement must be preserved. Another concern that needs to be addressed are the substantive customs rules.

"He also stressed that we must have a legally operational solution that meets all the objectives of the backstop: preventing a hard border, preserving North-South cooperation and the all-island economy, and protecting the EU's Single Market and Ireland's place in it.

"President Juncker confirmed to Prime Minister Johnson that the Commission will now examine the legal text objectively, and in light of our well-known criteria.

"The EU wants a deal. We remain united and ready to work 24/7 to make this happen – as we have been for over three years now."

READ MORE: Brexit: UK Government won't cover costs of Scottish No-Deal planning

The European Commission said meetings between the EU and UK negotiation teams will take place in Brussels over the coming days.

The European Commission's chief negotiator Michel Barnier and his team will update the European Parliament and the Council on Wednesday evening.

President Juncker will also speak to Taoiseach Leo Varadkar and "will listen carefully to his views", the Commission said.