CBI sources said searches took place at his Sector 19 office and Sector 39 residence for allegedly running businesses without informing the government.
The agency also searched a Hauz Khas-based company allegedly run by the manager and his wife.
The sources said two teams of the agency carried out searches in the morning.
When contacted over phone, Gupta, however, denied any such action saying no officer of CBI or its teams have contacted him or carried out any searches.
Also Read
They said his involvement in the alleged business activity has also surfaced after which the agency registered a case for alleged violation of Section 168 of Indian Penal Code against him.
The section pertains to a public servant unlawfully engaged in trade.
The sources said agency has seized approximately 3.29 lakhs cash from his residence, three lockers have also been found.
They said documents pertaining to properties at two locations have also been found.