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I am trying to find out which region (shapefile 2) each polygon in shapefile 1 is in. In some cases it may be in more than one region. In this case I am trying to determine in which ecosystem (Terrestrial Ecosystems of the World) each of the World's protected areas are in.

I have tried most combination of things in ArcMap 10.3 without success (I can get some to work but not others).

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You need to compute a spatial join with the "JOIN_ONE_TO_MANY" option

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