Hi Berthe, The UCSC Browser does not focus on viral genomes and there are no known public mirrors that offer them (although, if you find one, we would be interesting in knowing about it). Even so, sometimes viral sequences can be found in the host genomic, usually in a degraded form. Using both the mouse (mm9) and human (hg18) databases I was able to locate candidates by searching on the term "v-fos" in the "position/search" query.
Results labeled as "v-fos FBJ murine osteosarcoma viral oncogene" came up in the non-native species RefSeq (NCBI's full-length genes) track for each genome. There are several sequence versions - click back into NCBI for the information on the data sheet from the contributor as this may point you in fruitful directions. Also, NCBI has viral genome organizer (VGO). That might be a good place to start if you are interesting in doing research on viral biology. There are many links to external sites and some viral background science. Thank you for your patience while we worked on an answer for your question. Hopefully this information will give you a handle on the data to make the learning process a bit less frustrating, Jennifer Jackson UCSC Genome Bioinformatics Group Berthe M. Willumsen wrote: > I am looking for the sequence of v-fos. > > No matter how I think to tweek my query og blast or... > - I cannot find it. I realize it is not really a > mouse genome sequence. But I cannot figure it out. > > Can you help? In a general way how does one > search for viral sequences? Using their hosts > database? And if they are transduced sequences? > > I find this frustrating. > > Berthe > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
