snR13

ALTERNATE NAMES: none reported

LENGTH: 124 nts

PROCESS: 2'-O-methylation of rRNA

TARGET SITE(S):
25S rRNA: Am2280, Am2281

Guide Domains
 
Details of the guides at the Lowe Lab S. cerevisiae Methylation Guide snoRNA Database.
  Click number to see the target site in the 2D structure: 25S-2280, 25S-2281
Click number to see the approximate location of the modification site in the ribosome:25S-2280, 25S-2281

GENOMIC ORGANIZATION: Independent gene
 

SGD ORF MAP
ORFmap

GENE DISRUPTION PHENOTYPE: Viable

CORRESPONDENCES IN HUMANS AND PLANTS:
Click here and see that yeast and humans have corresponding modifications and guide snoRNAs.
Click here and see that yeast and Arabidopsis have corresponding modifications and guide snoRNAs.

PHYLOGENETIC CONSERVATION IN FUNGI:
Click here to examine conservation of the snoRNA in fungal genomes using BLAST.

RNA SEQUENCE:

   1 aggaaguuuu uuccuuuuua uaugaugaau augagugcau uuggcucgag uugcuguuug
  61 gcuuuugcca aaucaguaac gguguggaaa aacucaagcu accuuuuuuu acuuuuaucu
 121 gacc
 

YEAST GENOME DATABASE ENTRY:
Click here to view the SGD entry for this snoRNA.

REFERENCES:
Balakin, A. G., L. Smith, and M. J. Fournier. 1996. The RNA world of the nucleolus: two major families of small RNAs defined by different box elements with related functions. Cell 86:823-834.
Ganot, P., M. Caizergues-Ferrer, and T. Kiss. 1997. The family of box ACA small nucleolar RNAs is defined by an evolutionarily conserved secondary structure and ubiquitous sequence elements essential for RNA accumulation. Genes Dev. 11:941-956.
Lowe, T. M., and S. R. Eddy. 1999. A computational screen for methylation guide snoRNAs in yeast. Science 283:1168-1171.
Wu, P., J. S. Brockenbrough, A. C. Metcalfe, S. Chen, and J. P. Aris. 1998. Nop5p is a small nucleolar ribonucleoprotein component required for pre-18S rRNA processing in yeast. J. Biol. Chem. 273:16453-16463.
Carroll, K. L., D. A. Pradhan, J. A. Granek, N. D. Clarke, and J. L. Corden. 2004. Identification of cis elements directing termination of yeast nonpolyadenylated snoRNA transcripts. Mol. Cell. Biol. 24:6241-6252.
Rasmussen, T. P., and M. R. Culbertson. 1998. The putative nucleic acid helicase Sen1p is required for formation and stability of termini and for maximal rates of synthesis and levels of accumulation of small nucleolar RNAs in Saccharomyces cerevisiae. Mol. Cell. Biol. 18:6885-6896.
Steinmetz, E. J., and D. A. Brow. 2003. Ssu72 protein mediates both poly(A)-coupled and poly(A)-independent termination of RNA polymerase II transcription. Mol. Cell. Biol. 23:6339-6349.
Morlando, M., M. Ballarino, P. Greco, E. Caffarelli, B. Dichtl, and I. Bozzoni. 2004. Coupling between snoRNP assembly and 3' processing controls box C/D snoRNA biosynthesis in yeast. EMBO J. 23:2392-2401.
Ursic, D., K. Chinchilla, J. S. Finkel, and M. R. Culbertson. 2004. Multiple protein/protein and protein/RNA interactions suggest roles for yeast DNA/RNA helicase Sen1p in transcription, transcription-coupled DNA repair and RNA processing. Nucleic Acids Res. 32:2441-2452.


Last update: October 13, 2006 6:07 AM.