Invoice Header amount in case of Reverse charge mechanism

Dear Experts,

 Had a query, regarding the header amount of Invoice in case of reverse charge mechanism

  Vendor X, gives a bill 

Rs 10000

ST 1236

Total 11236

Here, the 75 % of ST is to be paid to ST Authority and 25 % to the vendor

Now, the header amount while entering the invoice in party account will be 10309. This will cause reconciliation issue with the vendor as the party had raised bill in his books of 11236.

How is this scenario handled.

Regards

Sachin