The terms of the deal were not disclosed, but ESPN's Adam Schefter reported Thursday that it is a one-year contract.
Jimmy Garoppolo is expected to start in place of Brady. The 23-year-old attempted 27 passes last season in his first year in the NFL.
Flynn has played for four different teams over his career and has made seven starts. He has 17 career touchdowns with 11 interceptions and a 61.3% completion percentage.
- Molly Geary