Hi Himanshu,
normally. If the item deleted in the backend - it is moved to sourcing cockpit in SRM (after run of the job BBP_GET_STATUS_2). Moved to sourcing means SOURCE_REL_IND field on position level is set to 'X'.
Following action should not be the deletion of the shopping cart position, but setting this field to 'Y' - it will show the status 'Cannot be ordered' for this position.
Please, check this topic for the hint.
Reject SC items from SoCo programatically
Regards
Konstantin