Hi, yes, i also replied quite late to the email as it had gone to my spam folder. Two things i did - In the reply to that e-mail (albeit late), after answering the 8 point questions, in the "Please also include any other updated information...." section I included a explanation for why i could not reply on time and also requested them a lot to consider my application despite the late reply.
Secondly, after replying to that email, i also raised a webform on the IRCC website again telling them what had happened and apologising for the late reply and requesting them to still consider our application, and i also attached a copy of the e-mail i had gotten from IRCC and my late reply.
Subsequently, my profile was updated and i eventually got a re-med request. So they are being lenient about it, although i cant say for sure which of the two steps i took may have worked, so i suggest you do the same. Dont worry, im sure they will consider it. Best of luck!