Generally, if your planning to use an upper grade video card, they normally take up two slots, So pciex1_3 and the M.2 slot will or may be blocked if you use a two slot video card in slot pciex16_2. With one video card in pciex16_1 your not going to block anything but that cmos battery.
Your not specifying what your using those slots for, but if the pcie hardware is only one slot wide then your o.k. Look at the specs of the pcie hardware your planning on using in those slots