You're on the right lines.
The cable capacitance does have a significant effect on your tone for two reasons.
Firstly high frequencies are shunted to ground by the capable capacitance.
Secondly the guitar pickup's output impedance forms a resonant circuit with the cable capacitance, and this can actually cause peaking at certain frequencies. See the link below for details:
http://terrydownsmusic.com/technotes/guitarcables/guitarcables.htmThey actually make a slight error in the equivalent circuit for an amplifier, in that most amps have a grid stopper resistor (typically 33-68k) that isolates the amp's input capacitance (the 100pF cap on the end) from the guitar. Regardless, the conclusions will be the same.
If you use all true bypass pedals (assuming you use pedals....) then all the cable between your guitar and amp will contribute to the cable capacitance. If you use a buffered pedal, such as any Boss pedal, then the only the cable to the first buffered pedal will contribute (also the input capacitance of the pedal is likely to be much lower than the 100pF of an amplifier without a grid stopper).
An active buffer in your guitar (assuming it's been designed properly) will negate cable capacitance effects for any sensible length of cable.
Hopefully this helps.
The bottom line is, cable capacitance does vary between cables, and can affect your tone, although obviously it's down to the end user to decide whether this is good, bad or indifferent. Low capacitance isn't always better.
For what it's worth I use about a 20 ft Van Damme cable with Neutrik jacks straight into the amp as I find these very durable.