They are definitely controlled by the 4-pin, PWM fan header on the motherboard.
Those fans go from 600RPM to 2200RPM, however you may find that going beyond 800RPM may not make much difference to cooling.
(Update: I think most boards offer down to 40% for case fan headers and 20% for the CPU. Thus, if using the case fan which is likely unless using push/pull rad setup for CPU then you probably can't go much below 900RPM since you take 40% of the max RPM)
*You will have to setup the motherboard fan control properly. I'm not sure what motherboard you have, but in MY case:
a) BIOS offered a basic mode, but wasn't fully configurable, and
b) My older Asus board had great software, however I had to use Windows 7 software as nothing was listed at the support site for W8 or W10 (there was software listed, just not anything for the fan).
c) Z77 Sabertooth had PWM and Voltage for case fans, but only PWM for the CPU (later boards seemed to bring back full PWM/Voltage for all but I can't be certain... I think Voltage control for 3-pin fans got dropped and then caused too many issues since CPU coolers still have 3-pin voltage control)
Recommended scenarios?
With only one fan header you'll be using the same temperature sensor for all fans (so maybe control 2xinput 1xtop/top exhaust, and 1xtop/rear exhaust?
Probably doesn't matter much overall, so pick one such as perhaps the main chipset sensor or one near your graphics card and perhaps do something like 600RPM at 40degC-> 800RPM at 50degC. you'll have to experiment but don't have them making a lot of noise if you get only 2degC reduction.