Hello Jun, I think if you zoom in you'll see that the last base in that exon appears to be 175337326. But in the refSeq table the exonStart is listed as 175337325. This is because our internal database representations of coordinates always have a zero-based start and a one-based end. In this case the left end of the exon is considered the start with respect to this coordinate issue. For more information on this please see this FAQ:
http://genome.ucsc.edu/FAQ/FAQtracks#tracks1 Hopefully this information was helpful and answers your question. If you have further questions or require clarification feel free to contact the mailing list at [email protected]. Regards, Pauline Fujita UCSC Genome Bioinformatics Group http://genome.ucsc.edu Jun Wan wrote: > Hi > > I am confused about the definition of exonStarts and exonEnds. For example, > if exon1 of NM_000079 starts at chr2:175337427 and ends at chr2:175337325, do > the nucleotides at these two positions belong to the exon or an intron > between the exons? From the link below > http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&position=chr2:175337324-175337370 > it looks like nucleotide at chr2: 175337325 is on an intron, correct? > > Thanks a lot for your answering. > > Best Regards, > Jun > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
