This mission is located in the city of Fremont, which js considered to be in the southestern section of the San Francisco Bay Area and therefore considered to be part of Northern California as opposed to the Central Valley or Southern California regions.
Do you mean in Northern California? No, it's located south of San Francisco. So, central California. If you go to the map on this Google Maps page where you posted this question, you can manipulate the map and see Mission San Jose's location in relationship with the entire state. Clicking on this map is a really helpful tool.
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