Hello Danit, A single gene will produce one or more transcripts, called variants. A google search into some biology web sites can help more with the details.
As far as the UCSC Browser is concerned (and other genome viewers), it is important to note that different data sets contain base sequence data that represent some subset of the potential variants per gene (complete or fragments). All variants for all genes are not known. At UCSC, read track descriptions for the types of data included, any assumptions concerning quality, and other guidelines for interpreting the results. This will help you to make decisions about which to use. It is a good idea to keep in mind that some false variation can result from the processes used produce the sequences (laboratory techniques, base reading, assembly, automated vs manual curation). In some cases, the method of genomic alignment may cause differences. BLAT is used for many of the tracks, but the parameters used can vary. Other tracks aligned by 3rd parties may be based on different alignment tools. Good luck, Jennifer Jackson ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "דנית עוז" <[email protected]> wrote: > From: "דנית עוז" <[email protected]> > To: [email protected] > Sent: Monday, October 12, 2009 9:03:08 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] question > > Hello, > I am a master student in genetics and using your website a lot to get > information regarding different genes. My question is I dont > understand why, > when I look up a certain gene, I get several variation of it, which > are > basicly all the same, and only differ in number of exons and coding > exons as > it appears under description of the gene, but if I go to RefSeq > accession, > under genomic alignments, I get a different no. of exons. For example > I > could refer you to the gene HSKM-B. It has 2 variations, one is > described > with 10 exons and non coding, the other with 8 exons and 7 coding. > Under > genomic alignments there are 12 exons, all coding. > > I would really appriciate you help. > > Thank you in advance, > > Danit. > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
