Description

The miRNA track shows microRNAs from the miRBase at The Wellcome Trust Sanger Institute.

Display Conventions and Configuration

Mature miRNAs (miRs) are represented by thick blocks. The predicted stem-loop portions of the primary transcripts are indicated by thinner blocks. miRNAs in the sense orientation are shown in black; those in the reverse orientation are colored grey. When a single precursor produces two mature miRs from its 5' and 3' parts, it is displayed twice with the two different positions of the mature miR.

To display only those items that exceed a specific unnormalized score, enter a minimum score between 0 and 1000 in the text box at the top of the track description page.

Methods

Mature and precursor miRNAs from the miRNA Registry were aligned against the genome using blat. The extents of the precursor sequences were not generally known, and were predicted based on base-paired hairpin structure. miRBase is described in Griffiths-Jones, S. et al. (2006). The miRNA Registry is described in Griffiths-Jones, S. (2004) and Weber, M.J. (2005) in the References section below.

Credits

This track was created by Michel Weber of Laboratoire de Biologie Moléculaire Eucaryote, CNRS Université Paul Sabatier (Toulouse, France), Yves Quentin of Laboratoire de Microbiologie et Génétique Moléculaires (Toulouse, France) and Sam Griffiths-Jones of The Wellcome Trust Sanger Institute (Cambridge, UK).

References

When making use of these data, please cite:

Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ. miRBase: microRNA sequences, targets and gene nomenclature. Nucl. Acids Res. 34, Database Issue, D140-D144 (2006).

Griffiths-Jones, S. The microRNA Registry, Nucl. Acids Res. 32, D109-D111 (2004).

Weber, M. J. New human and mouse microRNA genes found by homology search. Febs J 272, 59-73 (2005).

You may also want to cite The Wellcome Trust Sanger Institute miRNA Registry.

The following publication provides guidelines on miRNA annotation: Ambros, V. et al., A uniform system for microRNA annotation. RNA 9(3), 277-279 (2003).

For more information on blat, see Kent, W.J. BLAT - the BLAST-like alignment tool. Genome Res. 12(4), 656-664 (2002).