Alternative Splicing

[jon boyson]

Hi--
I need references and help from people familiar with alternative 
splicing. I've isolated alternatively spliced cDNAs from a MHC class I 
gene which appear fairly "normal," i.e., they are spliced exon to exon. 
However, I've also isolated a fair number of cDNAs from the same prep 
that are spliced in a rather haphazard fashion, e.g., the middle of one 
exon is spliced to the 3'UTR, others have deletions near intron/exon 
boundaries. 

As our lab has little experience in studying splicing, I want to know if 
these are "real," or are they splicing intermediates, or could they be 
experimental artifact (these were all subcloned from RT/PCR reactions 
from total RNA)?  Would we see any difference if we isolate message 
only? Does anyone have an excellent reference on the subject?

Thanks, 
jon