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Database Commons - snoRNA-LBME-db

snoRNA-LBME-db

Citations: 297

z-index 4.70

Short name snoRNA-LBME-db
Full name
Description The snoRNA-LBME-db is a dedicated database containing human C/D box and H/ACA box small nucleolar RNAs (snoRNAs), and small Cajal body-specific RNAs (scaRNAs).
URL https://www-snorna.biotoul.fr
Year founded 2005
Last update & version 2012-07-20    v3.0
Availability Not Available
University/Institution hosted French National Centre for Scientific Research
Address 118 route de Narbonne, 31062 Toulouse Cedex, France
City Cedex
Province/State
Country/Region France
Contact name Michel J. Weber
Contact email weber@ibcg.biotoul.fr
Data type(s)
Major organism(s)
Keyword(s)
  • snoRNA
Publication(s)
  • snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs. [PMID: 16381836]

    Laurent Lestrade, Michel J Weber
    Nucleic acids research 2006:34(Database issue)
    297 Citations (Google Scholar as of 2016-05-01)

    Abstract: The snoRNA-LBME-db is a dedicated database containing human C/D box and H/ACA box small nucleolar RNAs (snoRNAs), and small Cajal body-specific RNAs (scaRNAs). C/D box and H/ACA box snoRNAs are part of ribonucleoparticles that guide 2'-O-ribose methylation and pseudouridilation, respectively, of selected residues of 28S, 18S or 5.8S rRNAs or of the spliceosomal U6 RNA. Similarly, scaRNAs guide modifications of the spliceosomal RNAs transcribed by RNA polymerase II (U1, U2, U4, U5 and U12) and are often composed of both C/D box and H/ACA box domains. However, some snoRNAs do not function as modification guide RNAs, but rather as RNA chaperones during the maturation of pre-rRNA. The database was built by a compilation of the literature, and comprises human sno/scaRNAs that were experimentally verified, as well as the human orthologs of snoRNAs that were cloned in other vertebrate species, and some snoRNAs that are predicted by bioinformatics search in loci submitted to genomic imprinting, but have not all been experimentally verified. For each entry, the database identifies the modified nucleotide(s) in the target RNA(s), indicates the corresponding predicted base pairing, gives a few pertinent references and provides a link to the position of the sno/scaRNA on the UCSC Genome Browser. The 'Find guide RNA' function allows one to find the sno/scaRNAs predicted to guide the modification of a particular nucleotide in the rRNA and spliceosomal RNA sequences. The 'Browse' function allows one to download the sequences of selected sno/scaRNAs in the FASTA format. The database is available online at http://www-snorna.biotoul.fr/. It can also be accessed from the human UCSC Genome Browser via the sno/miRNA track.

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Tags

RNA
Homo sapiens
snoRNA

Record metadata

  • Created on: 2015-07-17
  • Curated by:
    • Lin Xia [2016-04-11]
    • Lin Xia [2016-03-28]
    • Mengwei Li [2016-02-20]
    • Zhang Zhang [2016-01-04]
    • Mengwei Li [2015-12-29]
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