Payment not showing in Paypal transactions

Is there some way that we could have paid an invoice NOT using paypal?  I need to start a claim for the money charged to the credit card, but the transaction is nowhere to be found in my paypal account.

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Thanks for the help.  We purchased an item, it was delivered but severely damaged.  The seller agreed to refund, but the time has passed in ebay for a claim, and since I can't find the transaction on paypal I was not sure what to do next.  Will be following up with the credit card company.

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