Hi Shirley,
That's precisely what I would have done once the refund has been received, however the accountant should have given you an adjustment to account for the fact that something was owed to the company, I think the adjustment should have been:
Dr B/S Corporation Tax Cr P/L Corporation Tax
This would show that there was corporation tax owed to the company.
I think just to be sure, you should ask the accountant but this is what I have always seen.
Hope that helps!
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