Hi Matthew
CIS can seem very complex if you're not used to accounting in the construction industry.
IMHO
Personally I would not account for CIS deducted until payment is actually received and the value can be verified with the statement of deduction. There could be any number of reasons why it may not match the value on the invoice. So your nominal account would show the value of the deductions made from each payment received and can be matched/reconciled to supporting payment certificates.
Reclaiming CIS suffered can be frustrating and depends upon the type of business.
if stole trader then he can reclaim on his SA return.
if a ltd company he can set off against any paye/nic liability for each tax period and it should be reported under RTI
if no paye or the value exceeds paye due, hmrc can usually refund or re-allocate it against any corporation tax due. However you have to specifically request this, and they are not quick to respond. Expect a wait of many months.
hope this helps
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