Detection of novel 3' untranslated region extensions with 3' expression microarrays.

ABSTRACT:

Background

The 3' untranslated regions (UTRs) of transcripts are not well characterized for many genes and often extend beyond the annotated regions. Since Affymetrix 3' expression arrays were designed based on expressed sequence tags, many probesets map to intergenic regions downstream of genes. We used expression information from these probesets to predict transcript extension beyond currently known boundaries.

Results

Based on our dataset encompassing expression in 22 different murine tissues, we identified 845 genes with predicted 3'UTR extensions. These extensions have a similar conservation as known 3'UTRs, which is distinctly higher than intergenic regions. We verified 8 of the predictions by PCR and found all of the predicted regions to be expressed. The method can b

SUBMITTER: Thorrez L 

PROVIDER: S-EPMC2858751 | biostudies-literature | 2010 Mar

REPOSITORIES: biostudies-literature