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Clan: SNORD74 (CL00069)

Summary

SNORD74 clan

The SNORD74 clan contains the RNA families SNORD79, SNORD113, SNORD74, snoR44_J54, snosnR64, snoMe28S-Cm2645, SNORD64, SNORD112 and SNORD109A. Researchers at the human snoRNA database (snoRNABase) have established that the following human and S. cerevisiae snoRNAs target modifications on orthologous positions of the ribosome: SNORD74 and snR64 [1]. Researchers at the plant snoRNA database have established that the following arabadopsis, human and S. cerevisiae snoRNAs target modifications on orthologous positions of the ribosome: snoR44_J54 and U74&SnR64, snoR44_J54 and U79 [2]. The following bioinformatic methods were used to confirm the relationship between these families: HMMER3 [3].

This clan contains 9 families and the total number of sequence regions in the clan is 3,346.

Literature references

  1. Lestrade L, Weber MJ;, Nucleic Acids Res. 2006;34:D158-D162.: snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs. 16381836
  2. Brown JW, Echeverria M, Qu LH, Lowe TM, Bachellerie JP, Huttenhofer A, Kastenmayer JP, Green PJ, Shaw P, Marshall DF, Nucleic Acids Res 2003;31:432-435.: Plant snoRNA database. 12520043
  3. Eddy SR, PLoS Comput Biol. 2008;4:e1000069.: A probabilistic model of local sequence alignment that simplifies statistical significance estimation. 18516236

Members

This clan contains the following 9 member families:

SNORD79 SNORD113 SNORD74 snoR44_J54 snosnR64 snoMe28S-Cm2645 SNORD64 SNORD112 SNORD109A

External database links

Secondary structures

This tool allows you to view the secondary structure images of two clan members side-by-side. Choose the family structures using the two drop-down menus below.

Alignments

The table below shows the number of occurrences of each family throughout the sequence database. In brackets beside each number is the percentage of the total number of sequence hits for the clan that are represented by this family. The rightmost column provides a link to the alignments tab for each family.

Rfam family Num. regions Alignment
SNORD109A (RF01278) 117 (3.5%) View
SNORD112 (RF01169) 95 (2.8%) View
SNORD64 (RF00570) 78 (2.3%) View
snoMe28S-Cm2645 (RF00530) 139 (4.2%) View
snosnR64 (RF00509) 62 (1.9%) View
snoR44_J54 (RF00357) 207 (6.2%) View
SNORD74 (RF00284) 266 (7.9%) View
SNORD113 (RF00181) 2,258 (67.5%) View
SNORD79 (RF00152) 124 (3.7%) View