Your original return and your amended return are processed separately.
From the IRS:
It’s taking us more than 20 weeks (instead of up to 16 weeks) to process amended returns. Do not file a second tax return or call the IRS.
You can check the status of your amended return on the IRS website, Where's My Refund. It can take 3 to 6 weeks for any information to show on the IRS website.
https://www.irs.gov/filing/wheres-my-amended-return
