If you just need to check the pairing you can do it using Edict's dataset.
On the Mac using JEDict you can do a search using the kanji root "search for verbs that start with xx" Most likely the first two results will be the transitive and intransitive pair.
I am guessing that online resources or a PC dictionary reader would allow you to make a similar search.
I found this listing that may also be of help.
http://www.sljfaq.org/afaq/jitadoushi.html
If you have the Japan Times Dictionary of Basic Grammar there's a short list pointing out the main patterns in Appendix 3
Maybe a course of action would be to find out the pairing of verbs you already know, and when you learn new verbs check for a corresponding transitive or intransitive pairing.
I suspect that the topic is only something that concerns second language learners. For a native speaker it would be one of the many things they just know somehow, having learnt the language naturally.