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. 2003 Jan 1;31(1):439-41.
doi: 10.1093/nar/gkg006.

Rfam: an RNA family database

Sam Griffiths-Jones  1 , Alex Bateman, Mhairi Marshall, Ajay Khanna, Sean R Eddy
Affiliations

Rfam: an RNA family database

Sam Griffiths-Jones et al. Nucleic Acids Res. .

Abstract

Rfam is a collection of multiple sequence alignments and covariance models representing non-coding RNA families. Rfam is available on the web in the UK at http://www.sanger.ac.uk/Software/Rfam/ and in the US at http://rfam.wustl.edu/. These websites allow the user to search a query sequence against a library of covariance models, and view multiple sequence alignments and family annotation. The database can also be downloaded in flatfile form and searched locally using the INFERNAL package (http://infernal.wustl.edu/). The first release of Rfam (1.0) contains 25 families, which annotate over 50 000 non-coding RNA genes in the taxonomic divisions of the EMBL nucleotide database.

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Figures

Figure 1
Figure 1
Seed alignment for the U12 spliceosomal RNA family from the UK website. Secondary structure base pairs are encoded in the coloured bases in the alignment, and are marked-up in the SS_cons lines with nested sets of < and > tags. The sequence accessions link to entries in the EMBL database.
See this image and copyright information in PMC

References

    1. Eddy S.R. (2002) Computational genomics of noncoding RNA genes. Cell, 109, 137–140. - PubMed
    1. Eddy S.R. (2001) Non-coding RNA genes and the modern RNA world. Nature Rev. Genet., 2, 919–929. - PubMed
    1. Storz G. (2002) An expanding universe of noncoding RNAs. Science, 296, 1260–1263. - PubMed
    1. Pace N.R., Thomas,B.C. and Woese,C.R. (1999) Probing RNA structure, function and history by comparative analysis. In Gesteland,R.F., Cech,T.R. and Atkins,J.F. (eds), The RNA World, 2nd Edn. Cold Spring Harbor Laboratory Press, pp. 113–141.
    1. Pace N.R. (1997) A molecular view of microbial diversity and the biosphere. Science, 276, 734–740. - PubMed

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