CIS submission not recording in Sage

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Hello, 

I submitted the CIS through Sage online and can see it registered on the HMRC site. In sage it says that it has not been submitted and is overdue. When I go to the archives, the return is not showing.

Do I hit Submitted by other method? If so will I be able to retrieve it from the archive files?

I cannot re-submit it as it will duplicate with HMRC or they will issue a fine for late delivery although there would be no changes to the report.

Anyone else having/ solved these issues please?