Prediction and verification of mouse tRNA gene families.

ABSTRACT:

Background

Transfer RNA (tRNA) gene predictions are complicated by challenges such as structural variation, limited sequence conservation and the presence of highly reiterated short interspersed sequences (SINEs) that originally derived from tRNA genes or tRNA-like transcription units. Annotation of "tRNA genes" in sequenced genomes generally have not been accompanied by experimental verification of the expression status of predicted sequences.

Results

To address this for mouse tRNA genes, we have employed two programs, tRNAScan-SE and ARAGORN, to predict the tRNA genes in the nuclear genome, resulting in diverse but overlapping predicted gene sets. From these, we removed known SINE repeats and sorted the genes into predicted families and single-copy genes. In particular, fo

SUBMITTER: Coughlin DJ 

PROVIDER: S-EPMC2783191 | biostudies-literature | 2009 Apr-Jun

REPOSITORIES: biostudies-literature