I think that depends on what you are expecting to keep. Are you needing to preserve the data or the SCORM package for the course?
Not knowing which repository you loaded the zip file to, I'm not sure how to best answer you. If you uploaded it as part of a course, then I would summarize it will be deleted. If you stored it in the repository separate from the course, then it would remain available.
If you really just want to preserve the SCORM package you can download the zip file to keep it and not have to worry about deleting the course itself. To do this, edit the SCORM activity and download the SCORM package by clicking on it. That is how I have done this in Moodle 2.5 and later. I have not used Moodle 2.4 but am assuming it will be similar.
If you are concerned about losing the data, then you should backup the course prior to deleting and then restore it if you need access to the data later.
Hopefully that answers your question.
Regards,
Ron