Alaska airlines gift certificates can only be redeemed at alaskair.com for flights operated by Alaska Airlines, Horizon Air, Penair between Anchorage and Dutch Harbor, and SkyWest Flight Series 3440-3499 as per the Gift certificate FAQ here. However Virgin America is now owned by Alaska Airlines and recently Alaska Airlines made a change to their website where you can use the Bank of America Alaska Credit Card companion certificate for redemption on flight tickets which includes Virgin America flights.
With this change technically you should be able to redeem the Alaska Airlines gift certificate on Virgin America flights as well. Let's walk through a booking which includes Alaska Airlines and Virgin America flights as shown below
Once you select the above flights and checkout you should see below two options on the payment page.
You can use up to 4 Alaska Airlines gift certificate per reservation. Also the website does not allow you to redeem the gift certificates for Virgin America flights if you try to redeem them. The trick here is to add the gift certificate to your "My Wallet" which allows you to add unlimited number of gift certificates to your "My Wallet" and then redeem it from there. This way you can use more than 4 Alaska Airlines gift certificate. Also you can now redeem the wallet balance for both Alaska Airlines as well as Virgin America flights. Here is the link to My Wallet page. You can use the option to "Deposit a Gift Card or Certificate" to add the Gift certificate balance to your "My Wallet".
So hopefully the next time you are looking to use the Alaska Airlines gift certificate on Virgin America flights (Before the full integration happens) you will have a way to do it without any issues.
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