It is not really a good idea to make patch cables unless absolutely necessary! The crimped connectors tend to come loose and be less reliable than factory made patch cables. Here is the difference between Cat5e and Cat6. You will encounter network problems that are difficult to diagnose. Having said that, check out this tutorial on CAT5/5E & CAT6 cabling.
The two most common standards are TIA 568A and 568B. The colors and terminations for the cable colors are generally color coded on the jacks. Some manufacturers require different terminations at each end of the cable to reduce noise, so be sure to use your manufacturer specifications. There are videos at Siemon that will walk you through the various terminations.