The police had sent the body for a post-mortem.
"We are considering this as part of the missing person inquiry. Jonathan's family have been informed of the discovery. It is clearly a distressing time for them and we continue to have dedicated family liaison officers in place to assist them," Detective Chief of London Valley Major Crime team Inspector Stan Gilmour said.
Marques's mother, Arcanja collapsed when the news was broken to her and husband Menino on Monday, Jan 26.
Marques had left home to go to school on Tuesday, Jan 6 and did not return, this prompted a public campaign in Reading, London and nearby areas.
Marques who had moved to Britain along with his parents three years ago was keen to move back to Goa. The Goan community across Britain had organised a series of prayer meetings for the safety of Marques.
The public campaign in Reading included putting up posters in public places and searches by volunteers.
Nearly 3,000 people had joined a Facebook group to find Marques.
OneIndia News (With inputs from Agencies)