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Apr 8, 2020 at 6:50 comment added David Loeffler If you're working with $\Gamma_0(N) \cap \Gamma_1(M)$ (i.e. level $N$ and characters of conductor dividing $M$) then the exact same argument shows $w_Q$ is defined over $\mathbf{Z}[1/N, \zeta_d]$ where $d = GCD(M, Q)$. (But this isn't really an "integrality" result as such, because the $1/N$ is still there, it's just controlling the roots of unity a little better.)
Apr 8, 2020 at 0:47 comment added Daniel Johnston Thank you very much, this is very useful! Do you know whether there is an even simpler integrality statement if we instead restrict to modular forms with character? That is, would the Atkin-Lehner operator $w_{Q,k}$ be $\mathbb{Z}[1/N,\zeta_d]$-integral for some $d$ related to the conductor of the character? If there isn't a clear answer to this I'm happy to make a new question.
Mar 9, 2020 at 10:17 vote accept Daniel Johnston
Mar 9, 2020 at 8:52 history answered David Loeffler CC BY-SA 4.0