TopTube,
You connect the DS1307 RTC to your Arduino on I2C, as shown in the datasheet:
http://datasheets.maximintegrated.com/en/ds/DS1307.pdf
SDA and SCL are pins A4 and A5 of your Arduino, respectively.
You need 10k resistors as pullups on these 2 pins. Backup battery is also necessary, as is a 32kHz crystal.