The airline, later in the day, said that Shetti missed the flight as he didn't turn up at the boarding gate on time.
"I was at T2 (terminal 2) of Mumbai airport for my morning flight to Delhi. It was necessary for me to board the flight. I was waiting in the lounge with my boarding pass.
"After sometime I realised that the boarding doors are closed. When I enquired, I was told that my flight had taken off," Shetti claimed.
"I had to pay Rs 2,000 extra when it was not even my fault. I am going to raise this issue before the Ministry of Civil Aviation," said the MP from Hatkanangle constituency.
Jet Airways, in a statement, said that Shetti did not turn up at the boarding gate on time.
"A guest, who checked in for Jet Airways flight 9W 762...Did not present himself at the boarding gate on time and was therefore considered as 'Gate No Show'," it said.
He was offered an alternative flight, and "apologies were tendered and charges levied inadvertently were refunded," said the airline.
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