The additional cost would be jointly borne by the central ministries of rail and urban development and Japanese agency JICA, he told reporters here.
The present equity sharing between the three promoters is Railway Ministry (39.80 per cent), Ministry of Urban Development (13.98 per cent) and JICA (46.22 per cent).
The proportion of equity would not alter when the three promoters chip in with more funds for the project, Supriyo told reporters here.
The second phase from Sealdah to Howrah Maidan was expected to be completed by June 2019.
Supriyo said following requests by the West Bengal government, the route had been re-aligned, which is costing an additional Rs 764 crore.
The Centre has agreed to bear this additional cost, he said, adding that necessary clearances from defence authorities were expected to be in place.
Heavy engineering PSU BEML has been given the contract to manufacture the rolling stock.
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