The intelligence officer was tasked with persuading Jamal Khashoggi to return to Saudi Arabia, a spokesman said.
Jamal Khashoggi was given a lethal injection after a struggle in the Saudi consulate in Istanbul on October 2, he added.
The Gulf kingdom’s public prosecutor has charged 11 people over the murder and is seeking the death penalty for five of them.
Their cases have been referred to a court while investigations into another 10 people suspected of involvement continue.
Meanwhile, the US treasury department imposed economic sanctions on 17 Saudi officials who it said had “targeted and brutally killed” Jamal Khashoggi, who lived and worked in the US, and had to “face consequences for their actions”.
They included Saud al-Qahtani, a former adviser to Crown Prince Mohammed bin Salman who the treasury department alleged was “part of the planning and execution of the operation” that led to Jamal Khashoggi’s murder; Maher Mutreb, who it said had “coordinated and executed” the operation; and Mohammed Alotaibi, the Istanbul consul-general.
According to Secretary of State Mike Pompeo, the sanctions were “an important step in responding to Khashoggi’s killing” and vowed to “continue to seek all relevant facts, consult Congress, and work with other nations to hold accountable those involved”.
At a news conference in Riyadh on November 15, Deputy Public Prosecutor Shalaan bin Rajih Shalaan said Jamal Khashoggi’s body was dismembered inside the consulate after his death.
The body parts were then handed over to a local “collaborator” outside the grounds, he added. A composite sketch of the collaborator has been produced and investigations are continuing to locate the remains.
The prosecutor did not identify any of those charged with the murder.
However, Shalaan bin Rajih Shalaane said investigations had “revealed that the person who ordered the killing was the head of the negotiations team” sent to Istanbul by deputy intelligence chief Gen Ahmed al-Assiri to force Jamal Khashoggi to return to Saudi Arabia from his self-imposed exile.
“[The crown prince] did not have any knowledge about it,” the prosecutor insisted.
Crown Prince Mohammed, the son of King Salman and Saudi Arabia’s de facto ruler, has denied any role in what he has called a “heinous crime that cannot be justified”.
However, critics believe it is highly unlikely the crown prince would not have been aware of the operation.
Several of the 21 people arrested over the murder have been seen in his security detail in the past. Gen. Ahmed al-Assiri and Saud al-Qahtani have also been sacked over the incident.
The prosecutor said Saud al-Qahtani had been banned from travelling and remained under investigation, but he did not say what had happened to Gen. Ahmed al-Assiri.
Turkey’s President Recep Tayyip Erdogan has said “the order to kill Khashoggi came from the highest levels of the Saudi government” but that he does not believe King Salman gave it.
On November 15, Turkey’s Foreign Minister Mevlut Cavusoglu said that some of the statements by the Saudi deputy public prosecutor were “unsatisfactory”.
Turkish officials have alleged that the 15 Saudi agents who flew to Istanbul in the hours before the murder, one of whom is believed to have been a forensic pathologist working for the Saudi interior ministry, were carrying a bone saw.
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