[BioC] difference between "hsa-miR-xxx" and "hsa-miR-xxx*"
Peter Robinson
peter.robinson at charite.de
Mon Oct 19 14:42:16 CEST 2009
mauede at alice.it wrote:
> I'd like to figure out the difference between validated miRNAs whose identifiers only differ by a "*".
See the following from miRbase
(http://www.mirbase.org/help/nomenclature.shtml):
When the relative abundancies clearly indicate which is the
predominantly expressed miRNA, the mature sequences are assigned names
of the form miR-56 (the predominant product) and miR-56* (from the
opposite arm of the precursor).
Note that the targets of the *-version are generally different from that
of the predominant product.
-Peter
>
> I downloaded the miRNA datasets "hsSeqs" and "hsTargets" and noticed that none of the miRNA identifiers
> in dataset "hsSeqs" contains the character "*" whereas many miRNA identifiers in dataset "hsTargets" end with
> the character "*". I checked a couple of them and found out that the set of Ensembl-Transcript_Identifiers for
> "hsa-miR-18a" and the set of Ensembl-Transcript_Identifiers for "hsa-miR-18a*" are disjoined.
> Therefore "hsa-miR-18a" and "hsa-miR-18a*" seem to be two different entities. I wonder whether
> "hsa-miR-18a" and "hsa-miR-18a*" share the same sequence even if apparently they bind to different
> gene transcripts.
>
> My naive question is:
> how can I find the sequence of those miRNAs whose identifier ends with a "*" given that none of the miRNA identifiers in dataset "hsSeqs" contain a "*" ?
> In short, I kind of realized that "hsa-miR-xxx*" is an evolution of "hsa-miR-xxx".
> But when it comes to dig out the 3UTR sequences of the relative targets which one of the two versions ( "hsa-miR-xxx" or "hsa-miR-xxx*" ) shall I ascribe them to ?
>
> Thank you in advance for your attention.
> Maura
>
>
>
> tutti i telefonini TIM!
>
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> tutti i telefonini TIM!
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--
Dr. med. Peter N. Robinson, MSc.
Institut für Medizinische Genetik
Universitätsklinikum Charite
Humboldt-Universität
Augustenburger Platz 1
13353 Berlin
Germany
voice: 49-30-450569124
fax: 49-30-450569915
email: peter.robinson at charite.de
http://compbio.charite.de/
http://www.human-phenotype-ontology.org
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