GST refund Claimed from Wrong Ledger

In that case you can withdraw the refund application and file it again.

Yes I am well aware of circular 125. 

The thing is that if the portal allowed you to file with igst refund is the fact you had the balance at the time of filing refund and also at the end of the period for which the refund is claimed. But there was no IGST itc pertaining to the period for which refund is being claimed. Therefore it cannot be claimed.

Withdrawal of refund application is a new concept and it has been recently introduced. You can look into it. 

And yes you can file again after withdrawal.

To understand the whole process of Exports & Refunds under GST and to ensure the smooth flow of refunds, click on the link below to watch the video : youtu.be/qU0rLgGJViM

For more details - CA Sachin M Jain .8O975. l5447 
1.WhatsApp : tinyurl.com/wCASMJ 
2. Facebook : tinyurl.com/FCASMJ 
3. Instagram : tinyurl.com/ICASMJ 
4. LinkedIn : tinyurl.com/LCASMJ  
5. YouTube : tinyurl.com/YCASMJ 
6. Twitter : tinyurl.com/TCASMJ 
7. Email : casachinmjain @ gmail.com