Dear UCSC, I was interested in getting the unspliced EST in any genome of interest. So, i downloaded the two datasets: Zebrafish ESTs Including Unspliced Zebrafish ESTs That Have Been Spliced
and the data which are only present in "Zebrafish ESTs Including Unspliced" will give me the unspliced EST. I have a question regarding this. When i look at this unspliced data, i find many regions are 10-20 KB long, and apparently have spliced sites as well. I guess, however those spliced regions do not have canonical introns, GT/AG ends, which is why it is considered as unspliced EST. My concern is: I am not sure, if it is good (atleast in my case) to consider these tens of KB long EST (with splice junctions), as unspliced EST. I am basically interested in looking for relatively short (upto few KB) unspliced EST in introns and 3'UTR. Among these unspliced dataset, i could just exclude the long EST and just focus on small EST, but i am not sure of that is the best way. Could you please suggest me how to deal with this ?? Thank you for your help in advance ! regards Chirag _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
