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Clan: SNORD88 (CL00071)

Summary

SNORD88 clan

The SNORD88 clan contains the RNA families SNORD88, snR76 and snoR118. 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: SNORD88 and snR76 [1]. The following bioinformatic methods were used to confirm the relationship between these families: HMMER3 [2].

This clan contains 3 families and the total number of sequence regions in the clan is 434.

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. 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 3 member families:

SNORD88 snR76 snoR118

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
snoR118 (RF01424) 167 (38.5%) View
snR76 (RF01209) 62 (14.3%) View
SNORD88 (RF00604) 205 (47.2%) View