In 1554, her husband and two of her sons were sent to the Tower of London under suspicion of having conspired in the rebellion of Thomas Wyatt, to depose Mary I of England, and replace her with her half-sister, Elizabeth.

Her eldest daughter, Elizabeth, who had bigamously married William Parr, Marquess of Northampton, while his wife, Anne Bourchier, still lived, was allegedly behind the earlier, failed plot in 1553 to place Lady Jane Grey upon the English throne.

She was buried in the chancel of St Mary Magdalene Church, in Cobham, Kent, beside her husband, who had died the previous September.

A magnificent tomb, with an effigy, was erected in 1561 and the Latin inscription was placed there by her eldest son, William, Baron Cobham.

The English translation reads in part: "Here Anna lies, a lady chaste and fair, Blest with her children's love and husband's care.