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I wanted to put my GPU in the second PCI-E x16 slot of the Msi G45. But notice on the photo, the second PCI-E slot (the lowest blue) the tab is like smaller? It's not the same as the first PCI-E x16 slot. Will that affect anything? Photo: http://images.highspeedbackbone.net/skuimages/large/M69-7176_chiclet01_gfv_mn_8216869.jpg

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The second slot is PCI E 2.0 X16. There will be a nearly unnoticeable speed decrease.

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It's most likely a slot wired for PCIe 8x.

 

Also, it's a 3.0 slot. http://us.msi.com/product/mb/Z77A-G45.html#?div=Detail

"It pays to keep an open mind, but not so open your brain falls out." - Carl Sagan.

"I can explain it to you, but I can't understand it for you" - Edward I. Koch

"I didn't die! I performed a tactical reset!" - Apollolol

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It is in fact a PCIe 2.0 x16 slot. It will fit just fine.

 

@TheMidnightNarwhal

Main Rig: CPU: AMD Ryzen 7 5700X3D | RAM: 32GB (2x16GB) KLEVV CRAS XR RGB DDR4-3600 | Motherboard: Gigabyte B550I AORUS PRO AX | Storage: 500GB Crucial P3 Plus, 4TB Silicon Power UD90 | GPU: AsRock Radeon RX 9070 XT Steel Legend | Cooling: ThermalTake Floe 280mm w/ be quiet! Pure Wings 3 | Case: Sliger SM580 (Black) | PSU: Corsair SF850

Main Server: CPU: AMD Ryzen 9 5950X | RAM: 64GB (2x32GB) Corsair Vengeance LPX DDR4-3200 | Motherboard: ASUS Crosshair VII Hero WiFi | Storage: 512GB SKHynix NVMe | GPUs: NVIDIA TITAN Xp 2-way SLI | Cooling: Thermalright Frozen Prism 360mm | Case: Corsair 5000D Airflow (White) | PSU: Seasonic Focus GM850

File and Media Server (AOOSTAR WTR Pro): CPU: AMD Ryzen 7 5825U | RAM: 32GB (2x16GB) Silicon Power DDR4-3200 SODIMMs | Storage: 1TB Samsung 970 EVO Plus, 2x14TB Western Digital Ultrastar DC HC530

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Litle corection my MOBO is the z87 G43 not the Z77A-G45

You are correct.

"It pays to keep an open mind, but not so open your brain falls out." - Carl Sagan.

"I can explain it to you, but I can't understand it for you" - Edward I. Koch

"I didn't die! I performed a tactical reset!" - Apollolol

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After doing research on the correct motherboard, it is a 3.0 slot. Putting a card in that slot will cause your top PCIe x16 slot to run at x8 because Haswell has 16 PCIe lanes. http://www.newegg.com/Product/Product.aspx?Item=N82E16813130693

"It pays to keep an open mind, but not so open your brain falls out." - Carl Sagan.

"I can explain it to you, but I can't understand it for you" - Edward I. Koch

"I didn't die! I performed a tactical reset!" - Apollolol

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