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What causes interrupt latency jitter?

I am using the ADSP-21488. At the beginning of an ISR (in my case the PWM-period-expired or the core-timer) I set a flag and reset it at the end. Using a scope I trigger on one rising edge and zoom in on the next one. I find that there is a jitter of 110 ns in 10 ns increments. 

What causes this jitter and how can it be reduced?

I am using interrupts() to set up the interrupts.