Home Secretary Anil Goswami resigned Wednesday after he was told by the government to put in his papers over his alleged role in trying to stall the arrest of former Congress minister Matang Sinh in the multi-crore-rupee Saradha scam.
Official sources said Goswami handed over his resignation to Home Minister Rajnath Singh.
"The home secretary has resigned. He met the home minister and submitted his resignation," said an official who did not want to be identified.
Goswami is the third senior official who had to resign or whose services were curtailed by the government over the past few weeks.
Sujatha Singh was removed as foreign secretary last week while the term of Avinash Chander as chief of the Defence Research and Development Organisation (DRDO) was curtailed last month.
K. Durga Prasad was apparently removed as chief of the Special Protection Group (SPG) during Prime Minister Narendra Modi's visit to Nepal and he has now been posted in the Central Reserve Police Force.
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Sources said Goswami was summoned by Rajnath Singh earlier in the day. He is learnt to have explained his position following the controversy over his calls to Central Bureau of Investigation (CBI) officials dealing with the Saradha chit fund scam case.
The sources said there have been top-level consultations in the government over the issue.
Rajnath Singh is also learnt to have spoken to CBI director Anil Sinha.
Goswami, an IAS officer of Jammu and Kashmir cadre, was appointed home secretary during the term of the previous United Progressive Alliance government.
There were reports that he had spoken to CBI officers following their decision to arrest Matang Sinh.
Matang Sinh, who was minister of state in the P.V. Narasimha Rao government in the 1990s, was arrested Jan 31 by the Central Bureau of Investigation (CBI) in Kolkata on charges of criminal conspiracy, cheating and misappropriation of funds in the Saradha scam.