It specifically says the dates apply to the end entity. They're not trying to get people off SHA1 in a couple months, they're trying to get them off in a year or two.
If you have a one year certificate (and I always recommend getting one year certificates so that these issues don't affect you and so that renewal becomes an annual chore, not an irregular panic) then you don't have to worry.
StartSSL simply need to cut new intermediates, signed with SHA-256, and provide them to customers once the leaf certificates that they issue start to stretch into 2016.
https://www.startssl.com/certs/class1/sha2/pem/sub.class1.se...