U1 snRNA

Teunissen, S.W.M., Stassen, M.H.W., Pruijn, G.J.M., van Venrooij, W.J., Hoet, R.M.A. (1998). Characterization of an anti-RNA recombinant autoantibody fragment (scFv) isolated from a phage display library and detailed analysis of its binding site on U1 snRNA. RNA, 4, 1124-1133. 

Bretagne, S., Assouline, B., Vidaud, D., Houin, R. and Vidaud, M. (1996) Echinococcus muitiiocuiaris microsatellite polymorphism in U1 snRNA genes. Experimental Parasitology 82, 324-328. 

Comparative gel electrophoresis analysis of the 4H junction of U1 snRNA showed the junction adopted a coaxially stacked structure with almost perpendicular axes (Fig. 7.3). This result was very recently confirmed crystallographically (Pomeranz-Krummel et al., 2009). Perhaps the most extensively studied 4H junction in RNA is that of the hairpin ribozyme,... 

Figure 7.3 Analysis of the 4H four-way RNA junction of the human U1 snRNA by comparative gel electrophoresis (Duckett et al., 1995). The central sequence of the junction is shown. The A G pair at the center was retained in this analysis, although changing it to a Watson—Crick pair did not alter the global shape of the junction. The six long—short species can be considered to be derived from a junction with four arms of 40 bp. The central 20 bp comprises RNA, and the outer arms are DNA. The junction species were electrophoresed in an 8% polyacrylamide gel, in 90 mM Tris—borate (pH 8.3) and 1 mM Mg2+. The mobility pattern of the six species is slow, slow, fast, fast, slow, slow. The simplest interpretation (shown on the right-hand side) is that of a stacked structure based on A on D and B on C coaxial stacking, with the axes nearly perpendicular. The pattern would also be consistent with a rapid exchange between nearly equal populations of parallel and antiparallel forms. However, a recent crystal structure has found a perpendicular stacked structure for this RNA junction (Pomeranz-Krummel et al., 2009).

Fig. 2 U1 snRNA recognizes three nucleotides at the 3 end of an exon and six nucleotides at the 5 end of an intron...

Gornemann J, Kotovic KM, Hujer K, Neugebauer KM. Cotran-scriptional spliceosome assembly occurs in a stepwise fashion and requires the cap binding complex. Mol. Cell 2005 19 53-63. Lacadie SA, Rosbash M. Cotranscriptional spliceosome assembly dynamics and the role of U1 snRNA 5 ss base pairing in yeast. Mol. Cell 2005 19 65-75. 

Hamm, J Darzynkiewicz, E., Tahara, S. M., and Mattaj, I. W. (1990). The trimethylguanosine cap structure of U1 snRNA is a component of a bipartite nuclear targeting signal, Cell (Cambridge, Mass.) 62, 569-577. 

Terns, M. P., Dahiberg, J. E., and Lund, E. (1993a). Multiple Cis-aciing signals for export of pre-U1 snRNA from the nucleus. Genes Dev. 7,1898-1908. 

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