Hello, This sequence does not have an intron, however it does have coding/non-coding regions defined. It is important to note that this sequence is aligned to the (-) strand. We report coordinates with respect to the (+) strand in most of our tables, so for this transcript, txEnd is really the start of transcription and cdsEnd is really the start of translation. The bases between are the 5' UTR.
Taking a look at this sequence in the Assembly browser would probably be very helpful when first interpreting the data. Also, the Table browser is a good tool to help understand table/file format (select the clade, genome, assembly, group, track and table then click on "View table schema"). All files in the Downloads annotation database location are in the Table browser. Some helpful documentation about our file formats: http://genome.ucsc.edu/FAQ/FAQformat http://genome.ucsc.edu/FAQ/FAQtracks#tracks1 http://genome.ucsc.edu/FAQ/FAQtracks#tracks15 http://genome.ucsc.edu/FAQ/FAQtracks#tracks17 We hope this helps to get you started. If you have any other specific questions, please let us know, Jennifer Jackson UCSC Genome Bioinformatics Group zhanyong wrote: > Dear Mr/Ms, > > I am a Research Assistant from Mecical School, Hong Kong University. I have > a question about the hg18 database. I downloaded the table "refGene". And I > am not clear about this table. > > For example, in the second row. The name of transcript is "NM_052910" and > the name of the gene is "SLITRK1", txStart=83349343, txEnd=83354529, > cdsStart=83351552,sdsEnd=83353643. One exon with start:83349343(same with > txStart), end: 83354529(same with txEnd). > > Then I was wondering, where is the 5'UTR and 3'UTR? > > And there is no intron, right? > > Thanks a lot, > > Best Regards, > > zhanyong Wang > > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
