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0  structures 369  species 795  sequences

Family: SNORD24 (RF00069)

Description: Small nucleolar RNA SNORD24

Summary

Wikipedia annotation Edit Wikipedia article

The Rfam group coordinates the annotation of Rfam families in Wikipedia. This family is described by a Wikipedia entry Small nucleolar RNA SNORD24. More...

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

Sequences

Alignment

There are various ways to view or download the seed alignments that we store. You can use a sequence viewer to look at them, or you can look at a plain text version of the sequence in a variety of different formats. More...

View options

You can view Rfam seed alignments in your browser in various ways. Choose the viewer that you want to use and click the "View" button to show the alignment in a pop-up window.

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Formatting options

You can view or download Rfam seed alignments in several formats. Check either the "download" button, to save the formatted alignment, or "view", to see it in your browser window, and click "Generate".

Alignment format:
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Download

Download a gzip-compressed, Stockholm-format file containing the seed alignment for this family. You may find RALEE useful when viewing sequence alignments.

Submit a new alignment

We're happy receive updated seed alignments for new or existing families. Submit your new alignment and we'll take a look.

Secondary structure

This section shows a variety of different secondary structure representations for this family. More...

You can view the secondary structure of the family using the VARNA applet. You can see more information about VARNA iself here.

Species distribution

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Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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Trees

This page displays the predicted phylogenetic tree for the alignment. More...

This tree was built using the fasttree method.

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Note: You can also download the data file for the seed tree.

References

This section shows the database cross-references that we have for this Rfam family.

Literature references

  1. Qu LH, Henry Y, Nicoloso M, Michot B, Azum MC, Renalier MH, Caizergues-Ferrer M, Bachellerie JP Nucleic Acids Res 1995;23:2669-2676. U24, a novel intron-encoded small nucleolar RNA with two 12 nt long, phylogenetically conserved complementarities to 28S rRNA. PUBMED:7651828

  2. Nicoloso M, Qu LH, Michot B, Bachellerie JP; J Mol Biol 1996;260:178-195. Intron-encoded, antisense small nucleolar RNAs: the characterization of nine novel species points to their direct role as guides for the 2'-O-ribose methylation of rRNAs. PUBMED:8764399

  3. Kiss-Laszlo Z, Henry Y, Bachellerie JP, Caizergues-Ferrer M, Kiss T; Cell 1996;85:1077-1088. Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs. PUBMED:8674114

  4. Gilley J, Fried M; DNA Cell Biol 1998;17:591-602. Evolution of U24 and U36 snoRNAs encoded within introns of vertebrate rpL7a gene homologs: unique features of mammalian U36 variants. PUBMED:9703018

  5. Hirose T, Steitz JA Proc Natl Acad Sci U S A 2001;98:12914-12919. Position within the host intron is critical for efficient processing of box C/D snoRNAs in mammalian cells. PUBMED:11606788

External database links

Curation and family details

This section shows the detailed information about the Rfam family. We're happy to receive updated or improved alignments for new or existing families. Submit your new alignment and we'll take a look.

Curation

Seed source Griffiths-Jones SR
Structure source Predicted; PFOLD; Griffiths-Jones SR, Daub J
Type Gene; snRNA; snoRNA; CD-box;
Author Griffiths-Jones SRORCID logo
Alignment details
Alignment Number of
sequences
full 781
seed 14

Model information

Build commands
cmbuild -F CM SEED
cmcalibrate --mpi CM
Search command
cmsearch --cpu 4 --verbose --nohmmonly -E 1000 -Z 549862.597050 CM SEQDB
Gathering cutoff 41.0
Trusted cutoff 41.2
Noise cutoff 40.8
Covariance model Download