RNA polymerase II C-terminal domain mediates regulation of alternative splicing by SRp20 (original) (raw)

• Wetterberg, I., Zhao, J., Masich, S., Wieslander, L. & Skoglund, U. In situ transcription and splicing in the Balbiani ring 3 gene. EMBO J. 20, 2564–2574 (2001).
  Article CAS Google Scholar
• Bird, G., Zorio, D.A. & Bentley, D.L. RNA polymerase II carboxy-terminal domain phosphorylation is required for cotranscriptional pre-mRNA splicing and 3′-end formation. Mol. Cell. Biol. 24, 8963–8969 (2004).
  Article CAS Google Scholar
• Das, R. et al. Functional coupling of RNAP II transcription to spliceosome assembly. Genes Dev. 20, 1100–1109 (2006).
  Article CAS Google Scholar
• Kornblihtt, A.R., de la Mata, M., Fededa, J.P., Munoz, M.J. & Nogues, G. Multiple links between transcription and splicing. RNA 10, 1489–1498 (2004).
  Article CAS Google Scholar
• Modrek, B. & Lee, C. A genomic view of alternative splicing. Nat. Genet. 30, 13–19 (2002).
  Article CAS Google Scholar
• Johnson, J.M. et al. Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays. Science 302, 2141–2144 (2003).
  Article CAS Google Scholar
• Kampa, D. et al. Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22. Genome Res. 14, 331–342 (2004).
  Article CAS Google Scholar
• Fededa, J.P. et al. A polar mechanism coordinates different regions of alternative splicing within a single gene. Mol. Cell 19, 393–404 (2005).
  Article CAS Google Scholar
• Lenasi, T., Peterlin, B.M. & Dovc, P. Distal regulation of alternative splicing by splicing enhancer in equine beta-casein intron 1. RNA 12, 498–507 (2006).
  Article CAS Google Scholar
• Morris, D.P. & Greenleaf, A.L. The splicing factor, Prp40, binds the phosphorylated carboxyl-terminal domain of RNA polymerase II. J. Biol. Chem. 275, 39935–39943 (2000).
  Article CAS Google Scholar
• Carty, S.M., Goldstrohm, A.C., Sune, C., Garcia-Blanco, M.A. & Greenleaf, A.L. Protein-interaction modules that organize nuclear function: FF domains of CA150 bind the phosphoCTD of RNA polymerase II. Proc. Natl. Acad. Sci. USA 97, 9015–9020 (2000).
  Article CAS Google Scholar
• Kim, E., Du, L., Bregman, D.B. & Warren, S.L. Splicing factors associate with hyperphosphorylated RNA polymerase II in the absence of pre-mRNA. J. Cell Biol. 136, 19–28 (1997).
  Article CAS Google Scholar
• Mortillaro, M.J. et al. A hyperphosphorylated form of the large subunit of RNA polymerase II is associated with splicing complexes and the nuclear matrix. Proc. Natl. Acad. Sci. USA 93, 8253–8257 (1996).
  Article CAS Google Scholar
• Yuryev, A. et al. The C-terminal domain of the largest subunit of RNA polymerase II interacts with a novel set of serine/arginine-rich proteins. Proc. Natl. Acad. Sci. USA 93, 6975–6980 (1996).
  Article CAS Google Scholar
• McCracken, S. et al. The C-terminal domain of RNA polymerase II couples mRNA processing to transcription. Nature 385, 357–361 (1997).
  Article CAS Google Scholar
• Misteli, T. & Spector, D.L. RNA polymerase II targets pre-mRNA splicing factors to transcription sites in vivo. Mol. Cell 3, 697–705 (1999).
  Article CAS Google Scholar
• Du, L. & Warren, S.L. A functional interaction between the carboxy-terminal domain of RNA polymerase II and pre-mRNA splicing. J. Cell Biol. 136, 5–18 (1997).
  Article CAS Google Scholar
• Roberts, G.C., Gooding, C., Mak, H.Y., Proudfoot, N.J. & Smith, C.W. Co-transcriptional commitment to alternative splice site selection. Nucleic Acids Res. 26, 5568–5572 (1998).
  Article CAS Google Scholar
• Howe, K.J., Kane, C.M. & Ares, M., Jr. Perturbation of transcription elongation influences the fidelity of internal exon inclusion in Saccharomyces cerevisiae. RNA 9, 993–1006 (2003).
  Article CAS Google Scholar
• Kadener, S. et al. Antagonistic effects of T-Ag and VP16 reveal a role for RNA pol II elongation on alternative splicing. EMBO J. 20, 5759–5768 (2001).
  Article CAS Google Scholar
• Nogues, G., Kadener, S., Cramer, P., Bentley, D. & Kornblihtt, A.R. Transcriptional activators differ in their abilities to control alternative splicing. J. Biol. Chem. 277, 43110–43114 (2002).
  Article CAS Google Scholar
• de la Mata, M. et al. A slow RNA polymerase II affects alternative splicing in vivo. Mol. Cell 12, 525–532 (2003).
  Article CAS Google Scholar
• Yonaha, M. & Proudfoot, N.J. Specific transcriptional pausing activates polyadenylation in a coupled in vitro system. Mol. Cell 3, 593–600 (1999).
  Article CAS Google Scholar
• Listerman, I., Sapra, A.K. & Neugebauer, K.M. Cotranscriptional coupling of splicing factor recruitment and precursor messenger RNA splicing in mammalian cells. Nat. Struct. Mol. Biol. 13, 815–822 (2006).
  Article CAS Google Scholar
• Bentley, D.L. Rules of engagement: co-transcriptional recruitment of pre-mRNA processing factors. Curr. Opin. Cell Biol. 17, 251–256 (2005).
  Article CAS Google Scholar
• Palancade, B. & Bensaude, O. Investigating RNA polymerase II carboxyl-terminal domain (CTD) phosphorylation. Eur. J. Biochem. 270, 3859–3870 (2003).
  Article CAS Google Scholar
• Kobor, M.S. & Greenblatt, J. Regulation of transcription elongation by phosphorylation. Biochim. Biophys. Acta 1577, 261–275 (2002).
  Article CAS Google Scholar
• Buratowski, S. The CTD code. Nat. Struct. Biol. 10, 679–680 (2003).
  Article CAS Google Scholar
• Rosonina, E. & Blencowe, B.J. Analysis of the requirement for RNA polymerase II CTD heptapeptide repeats in pre-mRNA splicing and 3′-end cleavage. RNA 10, 581–589 (2004).
  Article CAS Google Scholar
• Bartolomei, M.S., Halden, N.F., Cullen, C.R. & Corden, J.L. Genetic analysis of the repetitive carboxyl-terminal domain of the largest subunit of mouse RNA polymerase II. Mol. Cell. Biol. 8, 330–339 (1988).
  Article CAS Google Scholar
• Cramer, P., Pesce, C.G., Baralle, F.E. & Kornblihtt, A.R. Functional association between promoter structure and transcript alternative splicing. Proc. Natl. Acad. Sci. USA 94, 11456–11460 (1997).
  Article CAS Google Scholar
• Meininghaus, M., Chapman, R.D., Horndasch, M. & Eick, D. Conditional expression of RNA polymerase II in mammalian cells. Deletion of the carboxyl-terminal domain of the large subunit affects early steps in transcription. J. Biol. Chem. 275, 24375–24382 (2000).
  Article CAS Google Scholar
• Gerber, H.P. et al. RNA polymerase II C-terminal domain required for enhancer-driven transcription. Nature 374, 660–662 (1995).
  Article CAS Google Scholar
• Gossen, M. & Bujard, H. Tight control of gene expression in mammalian cells by tetracycline-responsive promoters. Proc. Natl. Acad. Sci. USA 89, 5547–5551 (1992).
  Article CAS Google Scholar
• Blau, J. et al. Three functional classes of transcriptional activation domain. Mol. Cell. Biol. 16, 2044–2055 (1996).
  Article CAS Google Scholar
• Bochnig, P., Reuter, R., Bringmann, P. & Luhrmann, R. A monoclonal antibody against 2,2,7-trimethylguanosine that reacts with intact, class U, small nuclear ribonucleoproteins as well as with 7-methylguanosine-capped RNAs. Eur. J. Biochem. 168, 461–467 (1987).
  Article CAS Google Scholar
• Chapman, R.D., Palancade, B., Lang, A., Bensaude, O. & Eick, D. The last CTD repeat of the mammalian RNA polymerase II large subunit is important for its stability. Nucleic Acids Res. 32, 35–44 (2004).
  Article CAS Google Scholar
• Fong, N., Bird, G., Vigneron, M. & Bentley, D.L. A 10 residue motif at the C-terminus of the RNA pol II CTD is required for transcription, splicing and 3′ end processing. EMBO J. 22, 4274–4282 (2003).
  Article CAS Google Scholar
• Laurencikiene, J., Kallman, A.M., Fong, N., Bentley, D.L. & Ohman, M. RNA editing and alternative splicing: the importance of co-transcriptional coordination. EMBO Rep. 7, 303–307 (2006).
  CAS PubMed PubMed Central Google Scholar
• Chapman, R.D., Conrad, M. & Eick, D. Role of the mammalian RNA polymerase II C-terminal domain (CTD) nonconsensus repeats in CTD stability and cell proliferation. Mol. Cell. Biol. 25, 7665–7674 (2005).
  Article CAS Google Scholar
• Cramer, P. et al. Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer. Mol. Cell 4, 251–258 (1999).
  Article CAS Google Scholar
• Zeng, C. & Berget, S.M. Participation of the C-terminal domain of RNA polymerase II in exon definition during pre-mRNA splicing. Mol. Cell. Biol. 20, 8290–8301 (2000).
  Article CAS Google Scholar
• Fong, N. & Bentley, D.L. Capping, splicing, and 3′ processing are independently stimulated by RNA polymerase II: different functions for different segments of the CTD. Genes Dev. 15, 1783–1795 (2001).
  Article CAS Google Scholar
• Komarnitsky, P., Cho, E.J. & Buratowski, S. Different phosphorylated forms of RNA polymerase II and associated mRNA processing factors during transcription. Genes Dev. 14, 2452–2460 (2000).
  Article CAS Google Scholar
• Lux, C. et al. Transition from initiation to promoter proximal pausing requires the CTD of RNA polymerase II. Nucleic Acids Res. 33, 5139–5144 (2005).
  Article CAS Google Scholar
• Ryan, K., Murthy, K.G., Kaneko, S. & Manley, J.L. Requirements of the RNA polymerase II C-terminal domain for reconstituting pre-mRNA 3′ cleavage. Mol. Cell. Biol. 22, 1684–1692 (2002).
  Article CAS Google Scholar
• Kadener, S., Fededa, J.P., Rosbash, M. & Kornblihtt, A.R. Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. Proc. Natl. Acad. Sci. USA 99, 8185–8190 (2002).
  Article CAS Google Scholar
• Park, N.J., Tsao, D.C. & Martinson, H.G. The two steps of poly(A)-dependent termination, pausing and release, can be uncoupled by truncation of the RNA polymerase II carboxyl-terminal repeat domain. Mol. Cell. Biol. 24, 4092–4103 (2004).
  Article CAS Google Scholar
• McCracken, S. et al. Role of RNA polymerase II carboxy-terminal domain in coordinating transcription with RNA processing. Cold Spring Harb. Symp. Quant. Biol. 63, 301–309 (1998).
  Article CAS Google Scholar
• Sato, S. et al. A set of consensus mammalian mediator subunits identified by multidimensional protein identification technology. Mol. Cell 14, 685–691 (2004).
  Article CAS Google Scholar
• Neugebauer, K.M. & Roth, M.B. Distribution of pre-mRNA splicing factors at sites of RNA polymerase II transcription. Genes Dev. 11, 1148–1159 (1997).
  Article CAS Google Scholar
• Mabon, S.A. & Misteli, T. Differential recruitment of pre-mRNA splicing factors to alternatively spliced transcripts in vivo. PLoS Biol. 3, e374 (2005).
  Article Google Scholar
• Smith, C.W. & Valcarcel, J. Alternative pre-mRNA splicing: the logic of combinatorial control. Trends Biochem. Sci. 25, 381–388 (2000).
  Article CAS Google Scholar
• Matlin, A.J., Clark, F. & Smith, C.W. Understanding alternative splicing: towards a cellular code. Nat. Rev. Mol. Cell Biol. 6, 386–398 (2005).
  Article CAS Google Scholar
• Caputi, M. et al. A novel bipartite splicing enhancer modulates the differential processing of the human fibronectin EDA exon. Nucleic Acids Res. 22, 1018–1022 (1994).
  Article CAS Google Scholar
• Elbashir, S.M. et al. Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411, 494–498 (2001).
  Article CAS Google Scholar
• Hanamura, A., Caceres, J.F., Mayeda, A., Franza, B.R., Jr. & Krainer, A.R. Regulated tissue-specific expression of antagonistic pre-mRNA splicing factors. RNA 4, 430–444 (1998).
  CAS PubMed PubMed Central Google Scholar