Bleed settings come out wrong when export to PDF

I'm working on a 5x13 door hanger in InDesign with a .125" bleed on all sides. I did the front in Illustrator and brought it into ID and I did the back entirely in ID since it's text heavy.
When I export it to PDF with bleed and crop marks showing, the crop marks show up where the color ends instead of .125" in from the edge of the color.
I keep double checking both the ID and Illustrator documents, and I can't see anything wrong. Maybe I'm missing something, but I can't think what.
Has anyone run into this problem before? Any thoughts on what I might be missing and how to fix it? Maybe ID handles bleeds differently than what I'm used to?

When you export to PDF there is an option to set bleeds in the export dialog or use the document bleeds. Maybe you have them set to 0 in the dialog and haven't checked use document bleeds?

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