Asserting that India will continue to pursue the matter with China in the context of the UN, he also noted that the government has had a "backing and forthing" on the issue with the Chinese.
"My sense is that the particular issue that you referred to is something we have taken up with the Chinese. We have taken it up at a sort of fairly high level and we will continue to pursue this with the Chinese," Jaishankar said.
At the same time, he indicated that the issue was not going affect India's relationship with China in other areas.
"This is an issue to be pursued with the Chinese in a UN context. I would not like to give the impression that somehow this is going to overflow into other areas. We have had a backing and forthing with them on this issue. We have to wait and see where this goes," he said.
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This is not the first time China has blocked India's bid to get Pakistan-based militant groups and leaders proscribed by the UN.
The UN had banned the JeM in 2001 but India's efforts for slapping sanctions on Azhar after the 2008 Mumbai terror attack also did not fructify as China, that has veto powers, did not allow it apparently at the behest of Pakistan again.
Last July, China had similarly halted India's move in the UN to take action against Pakistan for its release of Mumbai terror attack mastermind Zaki-ur-Rehman Lakhvi, saying its stand was "based on facts and in the spirit of objectiveness and fairness" with Beijing again claiming at the time that it was in touch with New Delhi.