JUMPstart RNA motif explained

JUMPstart RNA
Width:290
Symbol:JUMPstart RNA
Rfam:RF01707
Rna Type:Cis-regulatory element
Tax Domain:Bacteria

The JUMPstart RNA motif describes a conserved RNA-based secondary structure associated with JUMPstart elements.[1] The 39-base-pair JUMPstart sequence describes a conserved element upstream of genes that participate in polysaccharide synthesis.[2] The JUMPstart element has been shown to function as an RNA, and is present in the 5' untranslated regions of the genes it regulates.[3]

JUMPstart sequences include an ops element, which is an acronym for "operon-polarity suppressor" and has the nucleotide consensus GGCGGUAG.[4] The ops element acts in concert with the RfaH protein to improve transcription of genes downstream of the ops element, especially genes far away within long operons.[3] [4] [5] [6]

Notes and References

  1. Weinberg Z, Wang JX, Bogue J, etal . Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea and their metagenomes . Genome Biol . 11 . 3 . R31 . March 2010 . 20230605 . 10.1186/gb-2010-11-3-r31 . 2864571 . free .
  2. Hobbs M, Reeves PR . The JUMPstart sequence: a 39 bp element common to several polysaccharide gene clusters . Mol. Microbiol. . 12 . 5 . 855–856 . June 1994 . 8052136 . 10.1111/j.1365-2958.1994.tb01071.x. 19948539 .
  3. Marolda CL, Valvano MA . Promoter region of the Escherichia coli O7-specific lipopolysaccharide gene cluster: structural and functional characterization of an upstream untranslated mRNA sequence . J. Bacteriol. . 180 . 12 . 3070–3079 . June 1998 . 9620955 . 107806 . 10.1128/JB.180.12.3070-3079.1998.
  4. Nieto JM, Bailey MJ, Hughes C, Koronakis V . Suppression of transcription polarity in the Escherichia coli haemolysin operon by a short upstream element shared by polysaccharide and DNA transfer determinants . Mol. Microbiol. . 19 . 4 . 705–713 . February 1996 . 8820641 . 10.1046/j.1365-2958.1996.446951.x. 39593320 .
  5. Leeds JA, Welch RA . Enhancing transcription through the Escherichia coli hemolysin operon, hlyCABD: RfaH and upstream JUMPStart DNA sequences function together via a postinitiation mechanism . J. Bacteriol. . 179 . 11 . 3519–3527 . June 1997 . 9171395 . 179143 . 10.1128/jb.179.11.3519-3527.1997.
  6. Wang L, Jensen S, Hallman R, Reeves PR . Expression of the O antigen gene cluster is regulated by RfaH through the JUMPstart sequence . FEMS Microbiol. Lett. . 165 . 1 . 201–206 . August 1998 . 9711858 . 10.1111/j.1574-6968.1998.tb13147.x. free .

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