SQL Database Size Question

I am transferring a site to HostGator that has a relatively large database (300+ MB). phpMyAdmin is limited to 50MB to upload, so I tried doing it through SSH (mysql -uUSERNAME -pPASSWORD database_name < filename.sql). But for a 300 MB file it seemed to import fairly quickly, less than a minute. And sure enough, when I checked the database in phpMyAdmin the database was incomplete; only 96 of the 172 tables imported.

So I was curious if the 50MB limit imposed in phpMyAdmin also applied to SSH? If not, does anyone have an idea how I can do this and avoid waiting for support to do it?