The court sent the accused, Shamiun Rahman, who is of Bangladeshi origin, to prison after he was produced before it from the National Investigation Agency's (NIA) custody during an in-chamber proceeding, court sources said.
It is also believed to have granted 30 more days to the NIA to complete its investigation after the agency moved an application seeking extension of the mandatory period of 90 days which ended today.
The accused had earlier moved an application before a city court through advocate M S Khan alleging that he was sexually harassed by the jail security personnel and inhuman behaviour was meted out to him by them.
The court had sought a response from the jail authorities on that application.
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The Special Cell of the police had alleged that the process of radicalisation of Rahman alias Raju Bhai began in a jail in London where he was lodged on charges of rash driving.
An FIR was filed by the special cell after his arrest under various provisions relating to the stringent Unlawful Activities (Prevention) Act, Arms Act and Passport Act.