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Clan: SCARNA4 (CL00019)

Summary

SCARNA4 clan

The SCARNA4 clan contains the RNA families SCARNA4 and SCARNA15. The following bioinformatic methods were used to confirm the relationship between these families: CMSEARCH, HMMER3 and PRC [1,2,3].

This clan contains 2 families and the total number of sequence regions in the clan is 251.

Literature references

  1. Nawrocki EP, Kolbe DL, Eddy SR, Bioinformatics. 2009;25:1335-7.: Infernal 1.0: inference of RNA alignments. 19307242
  2. Eddy SR, PLoS Comput Biol. 2008;4:e1000069.: A probabilistic model of local sequence alignment that simplifies statistical significance estimation. 18516236
  3. Madera M, Bioinformatics. 2008;24:2630-2631.: Profile Comparer: a program for scoring and aligning profile hidden Markov models. 18845584

Members

This clan contains the following 2 member families:

SCARNA4 SCARNA15

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
SCARNA15 (RF00426) 124 (49.4%) View
SCARNA4 (RF00423) 127 (50.6%) View