메뉴 건너뛰기




Volumn 21, Issue 1, 2015, Pages 75-92

SR proteins control a complex network of RNA-processing events

Author keywords

Alternative pre mRNA splicing; Regulation of gene expression; RNA processing; SR proteins

Indexed keywords

SERINE ARGININE RICH PROTEIN; UNTRANSLATED RNA; MESSENGER RNA; PROTEIN BINDING; RNA BINDING PROTEIN;

EID: 84920540237     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.043893.113     Document Type: Article
Times cited : (108)

References (60)
  • 2
    • 79958090979 scopus 로고    scopus 로고
    • DREME: Motif discovery in transcription factor ChIPseq data
    • Bailey TL. 2011. DREME: motif discovery in transcription factor ChIPseq data. Bioinformatics 27: 1653-1659.
    • (2011) Bioinformatics , vol.27 , pp. 1653-1659
    • Bailey, T.L.1
  • 4
    • 0013394889 scopus 로고    scopus 로고
    • Mechanisms of alternative pre-messenger RNA splicing
    • Black DL. 2003. Mechanisms of alternative pre-messenger RNA splicing. Annu Rev Biochem 72: 291-336.
    • (2003) Annu Rev Biochem , vol.72 , pp. 291-336
    • Black, D.L.1
  • 5
    • 22344458119 scopus 로고    scopus 로고
    • Global analysis of positive and negative pre-mRNA splicing regulators in Drosophila
    • Blanchette M, Green RE, Brenner SE, Rio DC. 2005. Global analysis of positive and negative pre-mRNA splicing regulators in Drosophila. Genes Dev 19: 1306-1314.
    • (2005) Genes Dev , vol.19 , pp. 1306-1314
    • Blanchette, M.1    Green, R.E.2    Brenner, S.E.3    Rio, D.C.4
  • 6
    • 60549097502 scopus 로고    scopus 로고
    • Genome-wide analysis of alternative premRNA splicing and RNA-binding specificities of the Drosophila hnRNP A/B family members
    • Blanchette M, Green RE, MacArthur S, Brooks AN, Brenner SE, Eisen MB, Rio DC. 2009. Genome-wide analysis of alternative premRNA splicing and RNA-binding specificities of the Drosophila hnRNP A/B family members. Mol Cell 33: 438-449.
    • (2009) Mol Cell , vol.33 , pp. 438-449
    • Blanchette, M.1    Green, R.E.2    MacArthur, S.3    Brooks, A.N.4    Brenner, S.E.5    Eisen, M.B.6    Rio, D.C.7
  • 7
    • 38049090213 scopus 로고    scopus 로고
    • Regulatory mechanisms for 3? -end alternative splicing and polyadenylation of the Glial Fibrillary Acidic Protein, GFAP, transcript
    • Blechingberg J, Lykke-Andersen S, Jensen TH, Jorgensen AL, Nielsen AL. 2007. Regulatory mechanisms for 3? -end alternative splicing and polyadenylation of the Glial Fibrillary Acidic Protein, GFAP, transcript. Nucleic Acids Res 35: 7636-7650.
    • (2007) Nucleic Acids Res , vol.35 , pp. 7636-7650
    • Blechingberg, J.1    Lykke-Andersen, S.2    Jensen, T.H.3    Jorgensen, A.L.4    Nielsen, A.L.5
  • 9
    • 0036544654 scopus 로고    scopus 로고
    • Disruption of an SF2/ASF-dependent exonic splicing enhancer in SMN2 causes spinal muscular atrophy in the absence of SMN1
    • Cartegni L, Krainer AR. 2002. Disruption of an SF2/ASF-dependent exonic splicing enhancer in SMN2 causes spinal muscular atrophy in the absence of SMN1. Nat Genet 30: 377-384.
    • (2002) Nat Genet , vol.30 , pp. 377-384
    • Cartegni, L.1    Krainer, A.R.2
  • 10
    • 0033017499 scopus 로고    scopus 로고
    • The splicing factors 9G8 and SRp20 transactivate splicing through different and specific enhancers
    • Cavaloc Y, Bourgeois CF, Kister L, Stévenin J. 1999. The splicing factors 9G8 and SRp20 transactivate splicing through different and specific enhancers. RNA 5: 468-483.
    • (1999) RNA , vol.5 , pp. 468-483
    • Cavaloc, Y.1    Bourgeois, C.F.2    Kister, L.3    Stévenin, J.4
  • 11
    • 0025937073 scopus 로고
    • Characterization of a Drosophila protein associated with boundaries of transcriptionally active chromatin
    • Champlin DT, Frasch M, Saumweber H, Lis JT. 1991. Characterization of a Drosophila protein associated with boundaries of transcriptionally active chromatin. Genes Dev 5: 1611-1621.
    • (1991) Genes Dev , vol.5 , pp. 1611-1621
    • Champlin, D.T.1    Frasch, M.2    Saumweber, H.3    Lis, J.T.4
  • 12
    • 70350569286 scopus 로고    scopus 로고
    • Mechanisms of alternative splicing regulation: Insights from molecular and genomics approaches
    • Chen M, Manley JL. 2009. Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches. Nat Rev Mol Cell Biol 10: 741-754.
    • (2009) Nat Rev Mol Cell Biol , vol.10 , pp. 741-754
    • Chen, M.1    Manley, J.L.2
  • 13
    • 80052979140 scopus 로고    scopus 로고
    • Mechanisms and consequences of alternative polyadenylation
    • Di Giammartino DC, Nishida K, Manley JL. 2011. Mechanisms and consequences of alternative polyadenylation. Mol Cell 43: 853-866.
    • (2011) Mol Cell , vol.43 , pp. 853-866
    • Di Giammartino, D.C.1    Nishida, K.2    Manley, J.L.3
  • 14
    • 0037047644 scopus 로고    scopus 로고
    • Predictive identification of exonic splicing enhancers in human genes
    • Fairbrother WG, Yeh RF, Sharp PA, Burge CB. 2002. Predictive identification of exonic splicing enhancers in human genes. Science 297: 1007-1013.
    • (2002) Science , vol.297 , pp. 1007-1013
    • Fairbrother, W.G.1    Yeh, R.F.2    Sharp, P.A.3    Burge, C.B.4
  • 15
    • 0026437581 scopus 로고
    • General splicing factors SF2 and SC35 have equivalent activities in vitro, and both affect alternative 5? And 3? Splice site selection
    • Fu XD, Mayeda A, Maniatis T, Krainer AR. 1992. General splicing factors SF2 and SC35 have equivalent activities in vitro, and both affect alternative 5? and 3? splice site selection. Proc Natl Acad Sci 89: 11224-11228.
    • (1992) Proc Natl Acad Sci , vol.89 , pp. 11224-11228
    • Fu, X.D.1    Mayeda, A.2    Maniatis, T.3    Krainer, A.R.4
  • 16
    • 34147213102 scopus 로고    scopus 로고
    • The SR family proteins B52 and dASF/SF2 modulate development of the Drosophila visual system by regulating specific RNA targets
    • Gabut M, Dejardin J, Tazi J, Soret J. 2007. The SR family proteins B52 and dASF/SF2 modulate development of the Drosophila visual system by regulating specific RNA targets. Mol Cell Biol 27: 3087-3097.
    • (2007) Mol Cell Biol , vol.27 , pp. 3087-3097
    • Gabut, M.1    Dejardin, J.2    Tazi, J.3    Soret, J.4
  • 17
    • 0033835333 scopus 로고    scopus 로고
    • Sorting out the complexity of SR protein functions
    • Graveley BR. 2000. Sorting out the complexity of SR protein functions. RNA 6: 1197-1211.
    • (2000) RNA , vol.6 , pp. 1197-1211
    • Graveley, B.R.1
  • 18
    • 0032538791 scopus 로고    scopus 로고
    • A systematic analysis of the factors that determine the strength of pre-mRNA splicing enhancers
    • Graveley BR, Hertel KJ, Maniatis T. 1998. A systematic analysis of the factors that determine the strength of pre-mRNA splicing enhancers. EMBO J 17: 6747-6756.
    • (1998) EMBO J , vol.17 , pp. 6747-6756
    • Graveley, B.R.1    Hertel, K.J.2    Maniatis, T.3
  • 19
    • 0033989561 scopus 로고    scopus 로고
    • Pre-mRNA splicing by the essential Drosophila protein B52: Tissue and target specificity
    • Hoffman BE, Lis JT. 2000. Pre-mRNA splicing by the essential Drosophila protein B52: tissue and target specificity. Mol Cell Biol 20: 181-186.
    • (2000) Mol Cell Biol , vol.20 , pp. 181-186
    • Hoffman, B.E.1    Lis, J.T.2
  • 20
    • 33749515475 scopus 로고    scopus 로고
    • An exonic splicing silencer represses spliceosome assembly after ATP-dependent exon recognition
    • House AE, Lynch KW. 2006. An exonic splicing silencer represses spliceosome assembly after ATP-dependent exon recognition. Nat Struct Mol Biol 13: 937-944.
    • (2006) Nat Struct Mol Biol , vol.13 , pp. 937-944
    • House, A.E.1    Lynch, K.W.2
  • 22
    • 84877721757 scopus 로고    scopus 로고
    • SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase
    • Ji X, Zhou Y, Pandit S, Huang J, Li H, Lin CY, Xiao R, Burge CB, Fu XD. 2013. SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase. Cell 153: 855-868.
    • (2013) Cell , vol.153 , pp. 855-868
    • Ji, X.1    Zhou, Y.2    Pandit, S.3    Huang, J.4    Li, H.5    Lin, C.Y.6    Xiao, R.7    Burge, C.B.8    Fu, X.D.9
  • 24
    • 0041665176 scopus 로고    scopus 로고
    • A negative element in SMN2 exon 7 inhibits splicing in spinal muscular atrophy
    • Kashima T, Manley JL. 2003. A negative element in SMN2 exon 7 inhibits splicing in spinal muscular atrophy. Nat Genet 34: 460-463.
    • (2003) Nat Genet , vol.34 , pp. 460-463
    • Kashima, T.1    Manley, J.L.2
  • 27
    • 0025367075 scopus 로고
    • The essential pre-mRNA splicing factor SF2 influences 5? Splice site selection by activating proximal sites
    • Krainer AR, Conway GC, Kozak D. 1990. The essential pre-mRNA splicing factor SF2 influences 5? splice site selection by activating proximal sites. Cell 62: 35-42.
    • (1990) Cell , vol.62 , pp. 35-42
    • Krainer, A.R.1    Conway, G.C.2    Kozak, D.3
  • 28
    • 0029891101 scopus 로고    scopus 로고
    • The structure and function of proteins involved in mammalian pre-mRNA splicing
    • Kramer A. 1996. The structure and function of proteins involved in mammalian pre-mRNA splicing. Annu Rev Biochem 65: 367-409.
    • (1996) Annu Rev Biochem , vol.65 , pp. 367-409
    • Kramer, A.1
  • 29
    • 23044512629 scopus 로고    scopus 로고
    • Negative feedback regulation among SR splicing factors encoded by Rbp1 and Rbp1-like in Drosophila
    • Kumar S, Lopez AJ. 2005. Negative feedback regulation among SR splicing factors encoded by Rbp1 and Rbp1-like in Drosophila. EMBO J 24: 2646-2655.
    • (2005) EMBO J , vol.24 , pp. 2646-2655
    • Kumar, S.1    Lopez, A.J.2
  • 30
    • 33745944934 scopus 로고    scopus 로고
    • Direct interactions between subunits of CPSF and the U2 snRNP contribute to the coupling of pre-mRNA 3? End processing and splicing
    • Kyburz A, Friedlein A, Langen H, KellerW. 2006. Direct interactions between subunits of CPSF and the U2 snRNP contribute to the coupling of pre-mRNA 3? end processing and splicing. Mol Cell 23: 195-205.
    • (2006) Mol Cell , vol.23 , pp. 195-205
    • Kyburz, A.1    Friedlein, A.2    Langen, H.3    Keller, W.4
  • 31
    • 0033558874 scopus 로고    scopus 로고
    • Antagonism between RSF1 and SR proteins for both splice-site recognition in vitro and Drosophila development
    • Labourier E, Bourbon HM, Gallouzi IE, Fostier M, Allemand E, Tazi J. 1999. Antagonism between RSF1 and SR proteins for both splice-site recognition in vitro and Drosophila development. Genes Dev 13: 740-753.
    • (1999) Genes Dev , vol.13 , pp. 740-753
    • Labourier, E.1    Bourbon, H.M.2    Gallouzi, I.E.3    Fostier, M.4    Allemand, E.5    Tazi, J.6
  • 32
    • 0036792889 scopus 로고    scopus 로고
    • A general role for splicing enhancers in exon definition
    • Lam BJ, Hertel KJ. 2002. A general role for splicing enhancers in exon definition. RNA 8: 1233-1241.
    • (2002) RNA , vol.8 , pp. 1233-1241
    • Lam, B.J.1    Hertel, K.J.2
  • 33
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and mem-ory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and mem-ory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25.
    • (2009) Genome Biol , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 36
    • 58249093940 scopus 로고    scopus 로고
    • The SR protein family of splicing factors: Master regulators of gene expression
    • Long JC, Caceres JF. 2009. The SR protein family of splicing factors: master regulators of gene expression. Biochem J 417: 15-27.
    • (2009) Biochem J , vol.417 , pp. 15-27
    • Long, J.C.1    Caceres, J.F.2
  • 37
    • 0031840978 scopus 로고    scopus 로고
    • Regulation of alternative polyadenylation by U1 snRNPs and SRp20
    • Lou H, Neugebauer KM, Gagel RF, Berget SM. 1998. Regulation of alternative polyadenylation by U1 snRNPs and SRp20. Mol Cell Biol 18: 4977-4985.
    • (1998) Mol Cell Biol , vol.18 , pp. 4977-4985
    • Lou, H.1    Neugebauer, K.M.2    Gagel, R.F.3    Berget, S.M.4
  • 38
    • 0029858338 scopus 로고    scopus 로고
    • Assembly of specific SR protein complexes on distinct regulatory elements of the Drosophila doublesex splicing enhancer
    • LynchKW, Maniatis T. 1996. Assembly of specific SR protein complexes on distinct regulatory elements of the Drosophila doublesex splicing enhancer. Genes Dev 10: 2089-2101.
    • (1996) Genes Dev , vol.10 , pp. 2089-2101
    • Lynch, K.W.1    Maniatis, T.2
  • 39
    • 18344364099 scopus 로고    scopus 로고
    • Understanding alternative splicing: Towards a cellular code
    • Matlin AJ, Clark F, SmithCW. 2005. Understanding alternative splicing: towards a cellular code. Nat Rev Mol Cell Biol 6: 386-398.
    • (2005) Nat Rev Mol Cell Biol , vol.6 , pp. 386-398
    • Matlin, A.J.1    Clark, F.2    Smith, C.W.3
  • 41
    • 0033153543 scopus 로고    scopus 로고
    • RNA polymerase II targets pre-mRNA splicing factors to transcription sites in vivo
    • Misteli T, Spector DL. 1999. RNA polymerase II targets pre-mRNA splicing factors to transcription sites in vivo. Mol Cell 3: 697-705.
    • (1999) Mol Cell , vol.3 , pp. 697-705
    • Misteli, T.1    Spector, D.L.2
  • 42
    • 1942467065 scopus 로고    scopus 로고
    • Genomic variants in exons and introns: Identifying the splicing spoilers
    • Pagani F, Baralle FE. 2004. Genomic variants in exons and introns: identifying the splicing spoilers. Nat Rev Genet 5: 389-396.
    • (2004) Nat Rev Genet , vol.5 , pp. 389-396
    • Pagani, F.1    Baralle, F.E.2
  • 43
    • 56749098074 scopus 로고    scopus 로고
    • Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing
    • Pan Q, Shai O, Lee LJ, Frey BJ, Blencowe BJ. 2008. Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet 40: 1413-1415.
    • (2008) Nat Genet , vol.40 , pp. 1413-1415
    • Pan, Q.1    Shai, O.2    Lee, L.J.3    Frey, B.J.4    Blencowe, B.J.5
  • 47
    • 46249092601 scopus 로고    scopus 로고
    • Proliferating cells express mRNAs with shortened 3? Untranslated regions and fewer microRNA target sites
    • Sandberg R, Neilson JR, Sarma A, Sharp PA, Burge CB. 2008. Proliferating cells express mRNAs with shortened 3? untranslated regions and fewer microRNA target sites. Science 320: 1643-1647.
    • (2008) Science , vol.320 , pp. 1643-1647
    • Sandberg, R.1    Neilson, J.R.2    Sarma, A.3    Sharp, P.A.4    Burge, C.B.5
  • 48
    • 54849438715 scopus 로고    scopus 로고
    • Identification of nuclear and cytoplasmic mRNA targets for the shuttling protein SF2/ASF
    • Sanford JR, Coutinho P, Hackett JA, Wang X, Ranahan W, Caceres JF. 2008. Identification of nuclear and cytoplasmic mRNA targets for the shuttling protein SF2/ASF. PLoS One 3: e3369.
    • (2008) PLoS One , vol.3 , pp. e3369
    • Sanford, J.R.1    Coutinho, P.2    Hackett, J.A.3    Wang, X.4    Ranahan, W.5    Caceres, J.F.6
  • 50
    • 0030953470 scopus 로고    scopus 로고
    • A specific RNA hairpin loop structure binds the RNA recognition motifs of the Drosophila SR protein B52
    • Shi H, Hoffman BE, Lis JT. 1997. A specific RNA hairpin loop structure binds the RNA recognition motifs of the Drosophila SR protein B52. Mol Cell Biol 17: 2649-2657.
    • (1997) Mol Cell Biol , vol.17 , pp. 2649-2657
    • Shi, H.1    Hoffman, B.E.2    Lis, J.T.3
  • 52
    • 7444220147 scopus 로고    scopus 로고
    • Aberrant and alternative splicing in cancer
    • Venables JP. 2004. Aberrant and alternative splicing in cancer. Cancer Res 64: 7647-7654.
    • (2004) Cancer Res , vol.64 , pp. 7647-7654
    • Venables, J.P.1
  • 54
    • 0035370526 scopus 로고    scopus 로고
    • Spliceosomal UsnRNP biogenesis, structure and function
    • Will CL, Lührmann R. 2001. Spliceosomal UsnRNP biogenesis, structure and function. Curr Opin Cell Biol 13: 290-301.
    • (2001) Curr Opin Cell Biol , vol.13 , pp. 290-301
    • Will, C.L.1    Lührmann, R.2
  • 55
    • 0027137934 scopus 로고
    • Specific interactions between proteins implicated in splice site selection and regulated alternative splicing
    • Wu JY, Maniatis T. 1993. Specific interactions between proteins implicated in splice site selection and regulated alternative splicing. Cell 75: 1061-1070.
    • (1993) Cell , vol.75 , pp. 1061-1070
    • Wu, J.Y.1    Maniatis, T.2
  • 56
    • 77950357450 scopus 로고    scopus 로고
    • A splicingindependent function of SF2/ASF in microRNA processing
    • Wu H, Sun S, Tu K, Gao Y, Xie B, Krainer AR, Zhu J. 2010. A splicingindependent function of SF2/ASF in microRNA processing. Mol Cell 38: 67-77.
    • (2010) Mol Cell , vol.38 , pp. 67-77
    • Wu, H.1    Sun, S.2    Tu, K.3    Gao, Y.4    Xie, B.5    Krainer, A.R.6    Zhu, J.7
  • 57
    • 1642372088 scopus 로고    scopus 로고
    • SC35 and heterogeneous nuclear ribonucleoprotein A/B proteins bind to a juxtaposed exonic splicing enhancer/exonic splicing silencer element to regulate HIV-1 tat exon 2 splicing
    • Zahler AM, Damgaard CK, Kjems J, Caputi M. 2004. SC35 and heterogeneous nuclear ribonucleoprotein A/B proteins bind to a juxtaposed exonic splicing enhancer/exonic splicing silencer element to regulate HIV-1 tat exon 2 splicing. J Biol Chem 279: 10077-10084.
    • (2004) J Biol Chem , vol.279 , pp. 10077-10084
    • Zahler, A.M.1    Damgaard, C.K.2    Kjems, J.3    Caputi, M.4
  • 58
    • 67649671966 scopus 로고    scopus 로고
    • SR proteins in vertical integration of gene expression from transcription to RNA processing to translation
    • Zhong XY, Wang P, Han J, Rosenfeld MG, Fu XD. 2009. SR proteins in vertical integration of gene expression from transcription to RNA processing to translation. Mol Cell 35: 1-10.
    • (2009) Mol Cell , vol.35 , pp. 1-10
    • Zhong, X.Y.1    Wang, P.2    Han, J.3    Rosenfeld, M.G.4    Fu, X.D.5
  • 59
    • 0034671932 scopus 로고    scopus 로고
    • Pre-mRNA splicing in the absence of an SR protein RS domain
    • Zhu J, Krainer AR. 2000. Pre-mRNA splicing in the absence of an SR protein RS domain. Genes Dev 14: 3166-3178.
    • (2000) Genes Dev , vol.14 , pp. 3166-3178
    • Zhu, J.1    Krainer, A.R.2
  • 60
    • 0035691667 scopus 로고    scopus 로고
    • Exon identity established through differential antagonism between exonic splicing silencerbound hnRNP A1 and enhancer-bound SR proteins
    • Zhu J, Mayeda A, Krainer AR. 2001. Exon identity established through differential antagonism between exonic splicing silencerbound hnRNP A1 and enhancer-bound SR proteins. Mol Cell 8: 1351-1361.
    • (2001) Mol Cell , vol.8 , pp. 1351-1361
    • Zhu, J.1    Mayeda, A.2    Krainer, A.R.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.