The New Zealand Resident Doctors' Association said its members were taking the action to support their claims for safer rosters and safer hours.
The strike period is from 7am, October 18, to 7am, October 20. The action will involve a total withdrawal of labour.
National secretary Deborah Powell said it was ``extremely disappointing'' the dispute had reached this point, but members felt they had no choice.
``We have yet to see sufficient real change in the system after four years of engagement and 10 months of bargaining. We see no other way to secure safer rosters for our nation's doctors and the patients we care for,'' Dr Powell said.
District health boards' national workforce and employment relations programme lead chief executive Julie Patterson said the DHBs tabled a last-minute offer yesterday in an effort to avert the strike but the union had already indicated it would reject that offer too.
``We hope the union will at least let the [junior doctors] discuss the DHB offer, before putting the public of New Zealand through the disruption of industrial action.
``We have agreed to split night shifts that the union report cause fatigue. We have given an assurance that the maximum number of days worked in a row will be reduced to 10 days and we have provided a framework to fast-track the changes required.
``Despite the DHBs' offer, the union has maintained its position of expecting DHBs to pay the [junior doctors] for the days off that will result from the roster changes,'' Mrs Patterson said.
Patients would be advised if they were likely to be affected by the strike action.