A Regulatory RNA Motifs and Elements Finder
  Release 1.0, Jan 2006

Accession R0014
Feature Type RegRNA in 5'-UTR
Name Vimentin 3'UTR cis-acting element(VIM3)
Regulatory Motif

	ss(seq="YTTRRRRRAA", mismatch=2)

	ss(minlen=0, maxlen=4)

	ss(seq="CAGCTTTCAAGTGCCTTT", mismatch=2)

	ss(minlen=0, maxlen=2)

	ss(seq="TSCAGTT", mismatch=2)

	ss(minlen=6, maxlen=7)

	ss(seq="GAGCG", mismatch=2)

	ss(minlen=0, maxlen=1)

	ss(seq="AAGATW", mismatch=2)

Description Vimentin is an intermediate filement protein whose 3'UTR sequence is highly conserved among vertebrates and has been found to be a target for one or more RNA binding protein which include a 46-and 35-kDa protein plus a minor band containing a 60-kDa protein. The sequences required for binding are contained within a region 61-114 nucleotides downstream the stop codon which is able to fold into a Y-shaped secondary structure confirmed by nuclease and lead cleavage. It has been suggested that this 53 nt conserved region located in the 3'UTR and associated protein(s) might be important for vimentin mRNA function as well as for its localization in the perinuclear region of the cytoplasm possibly at sites of intermediate filament assembly.
References Zehner ZE, Shepherd RK, Gabryszuk J, Fu TF, Al-Ali M, and Holmes WM
RNA-protein interactions within the 3 untranslated region of vimentin mRNA.
Nucleic Acids Res 1997; 25(16), 3362-70   PubMed 

Department of Biological Science and Technology, Institute of Bioinformatics, National Chiao Tung University, Taiwan
Contact with Dr. Hsien-Da Huang