When you view a chromosome or scaffold for an NCBI RefSeq genome in the Genome Data Viewer ( GDV) or using the Sequence Viewer, you’ll see a track labeled ‘RNA-seq intron features, aggregate’ that shows splice junctions inferred from analysis of RNA-seq data from the NCBI’s Sequence Read Archive ( SRA). The Intropolis track was added through the search feature of the Configure Tracks menu and configured (bottom menu) so that the features were sorted by strand and filtered so that only features with greater than 500 reads appear. Mousing-over an intron feature activates a tooltip that shows details such as the number of reads with the splice site, the location on the chromosome, the length of the intron and the donor and acceptor bases at the splice site. Graphical view of the monoamine oxidase gene ( MAOA, MOAB) region on the human X chromosome showing intron features tracks (‘RNA-seq intron features, aggregate’ and ‘ Intropolis RNA-Seq intron features’). You can view the NCBI evidence used for calling splice variant for genes, add other intron feature evidence tracks, and use new display and filter options that make it easier to interpret the data. ![]() Are you a researcher who works on gene biology and are interested in alternative splice patterns in your gene or genes of interest? If so, be sure to explore the intron feature evidence available in graphics views of genome assemblies annotated by NCBI.
0 Comments
Leave a Reply. |
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |