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Formation of the 3' end of U1 snRNA is directed by a conserved sequence located downstream of the coding region.

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The EMBO Journal, 01 Jul 1985, 4(7):1827-1837
https://doi.org/10.1002/j.1460-2075.1985.tb03857.x PMID: 2411548 PMCID: PMC554424

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Abstract 

U1 is a small non-polyadenylated nuclear RNA that is transcribed by RNA polymerase II and is known to play a role in mRNA splicing. The mature 3' end of U1 snRNA is formed in at least two steps. The first step generates precursors of U1 RNA with a few extra nucleotides at the 3' end; in the second step, these precursors are shortened to mature U1 RNA. Here, I have determined the sequences required for the first step. Human U1 genes with various deletions and substitutions near the 3' end of the coding region were constructed and introduced into HeLa cells by DNA transfection. The structure of the RNA synthesized during transient expression of the exogenous U1 gene was analyzed by S1 mapping. The results show that a 13 nucleotide sequence located downstream from the U1 coding region and conserved among U1, U2 and U3 genes of different species is the only sequence required to direct the first step in the formation of the 3' end of U1 snRNA.

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EMBO J. 1985 Jul; 4(7): 1827–1837.
PMCID: PMC554424
PMID: 2411548

Formation of the 3' end of U1 snRNA is directed by a conserved sequence located downstream of the coding region.

N Hernandez
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Abstract

U1 is a small non-polyadenylated nuclear RNA that is transcribed by RNA polymerase II and is known to play a role in mRNA splicing. The mature 3' end of U1 snRNA is formed in at least two steps. The first step generates precursors of U1 RNA with a few extra nucleotides at the 3' end; in the second step, these precursors are shortened to mature U1 RNA. Here, I have determined the sequences required for the first step. Human U1 genes with various deletions and substitutions near the 3' end of the coding region were constructed and introduced into HeLa cells by DNA transfection. The structure of the RNA synthesized during transient expression of the exogenous U1 gene was analyzed by S1 mapping. The results show that a 13 nucleotide sequence located downstream from the U1 coding region and conserved among U1, U2 and U3 genes of different species is the only sequence required to direct the first step in the formation of the 3' end of U1 snRNA.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.
  • Acheson NH. Polyoma virus giant RNAs contain tandem repeats of the nucleotide sequence of the entire viral genome. Proc Natl Acad Sci U S A. 1978 Oct;75(10):4754–4758. [Europe PMC free article] [Abstract] [Google Scholar]
  • Alonso A, Jorcano JL, Beck E, Hovemann B, Schmidt T. Drosophila melanogaster U1 snRNA genes. J Mol Biol. 1984 Dec 25;180(4):825–836. [Abstract] [Google Scholar]
  • Alonso A, Beck E, Jorcano JL, Hovemann B. Divergence of U2 snRNA sequences in the genome of D. melanogaster. Nucleic Acids Res. 1984 Dec 21;12(24):9543–9550. [Europe PMC free article] [Abstract] [Google Scholar]
  • Amara SG, Evans RM, Rosenfeld MG. Calcitonin/calcitonin gene-related peptide transcription unit: tissue-specific expression involves selective use of alternative polyadenylation sites. Mol Cell Biol. 1984 Oct;4(10):2151–2160. [Europe PMC free article] [Abstract] [Google Scholar]
  • Berget SM. Are U4 small nuclear ribonucleoproteins involved in polyadenylation? Nature. 1984 May 10;309(5964):179–182. [Abstract] [Google Scholar]
  • Berk AJ, Lee F, Harrison T, Williams J, Sharp PA. Pre-early adenovirus 5 gene product regulates synthesis of early viral messenger RNAs. Cell. 1979 Aug;17(4):935–944. [Abstract] [Google Scholar]
  • Birchmeier C, Folk W, Birnstiel ML. The terminal RNA stem-loop structure and 80 bp of spacer DNA are required for the formation of 3' termini of sea urchin H2A mRNA. Cell. 1983 Dec;35(2 Pt 1):433–440. [Abstract] [Google Scholar]
  • Birchmeier C, Grosschedl R, Birnstiel ML. Generation of authentic 3' termini of an H2A mRNA in vivo is dependent on a short inverted DNA repeat and on spacer sequences. Cell. 1982 Apr;28(4):739–745. [Abstract] [Google Scholar]
  • Birchmeier C, Schümperli D, Sconzo G, Birnstiel ML. 3' editing of mRNAs: sequence requirements and involvement of a 60-nucleotide RNA in maturation of histone mRNA precursors. Proc Natl Acad Sci U S A. 1984 Feb;81(4):1057–1061. [Europe PMC free article] [Abstract] [Google Scholar]
  • Bringmann P, Appel B, Rinke J, Reuter R, Theissen H, Lührmann R. Evidence for the existence of snRNAs U4 and U6 in a single ribonucleoprotein complex and for their association by intermolecular base pairing. EMBO J. 1984 Jun;3(6):1357–1363. [Europe PMC free article] [Abstract] [Google Scholar]
  • Brown DT, Morris GF, Chodchoy N, Sprecher C, Marzluff WF. Structure of the sea urchin U1 RNA repeat. Nucleic Acids Res. 1985 Jan 25;13(2):537–556. [Europe PMC free article] [Abstract] [Google Scholar]
  • Chandrasekharappa SC, Smith JH, Eliceiri GL. Biosynthesis of small nuclear RNAs in human cells. J Cell Physiol. 1983 Nov;117(2):169–174. [Abstract] [Google Scholar]
  • Eliceiri GL. Short-lived, small RNAs in the cytoplasm of HeLa cells. Cell. 1974 Sep;3(1):11–14. [Abstract] [Google Scholar]
  • Eliceiri GL. Formation of low molecular weight RNA species in HeLa cells. J Cell Physiol. 1980 Feb;102(2):199–207. [Abstract] [Google Scholar]
  • Eliceiri GL, Sayavedra MS. Small RNAs in the nucleus and cytoplasm of HeLa cells. Biochem Biophys Res Commun. 1976 Sep 20;72(2):507–512. [Abstract] [Google Scholar]
  • Fitzgerald M, Shenk T. The sequence 5'-AAUAAA-3'forms parts of the recognition site for polyadenylation of late SV40 mRNAs. Cell. 1981 Apr;24(1):251–260. [Abstract] [Google Scholar]
  • Ford JP, Hsu MT. Transcription pattern of in vivo-labeled late simian virus 40 RNA: equimolar transcription beyond the mRNA 3' terminus. J Virol. 1978 Dec;28(3):795–801. [Europe PMC free article] [Abstract] [Google Scholar]
  • Frayne EG, Leys EJ, Crouse GF, Hook AG, Kellems RE. Transcription of the mouse dihydrofolate reductase gene proceeds unabated through seven polyadenylation sites and terminates near a region of repeated DNA. Mol Cell Biol. 1984 Dec;4(12):2921–2924. [Europe PMC free article] [Abstract] [Google Scholar]
  • Frederiksen S, Hellung-Larsen P, Gram Jensen E. The differential inhibitory effect of alpha-amanitin on the synthesis of low molecular weight RNA components in BHK cells. FEBS Lett. 1978 Mar 15;87(2):227–231. [Abstract] [Google Scholar]
  • Georgiev O, Birnstiel ML. The conserved CAAGAAAGA spacer sequence is an essential element for the formation of 3' termini of the sea urchin H3 histone mRNA by RNA processing. EMBO J. 1985 Feb;4(2):481–489. [Europe PMC free article] [Abstract] [Google Scholar]
  • Gil A, Proudfoot NJ. A sequence downstream of AAUAAA is required for rabbit beta-globin mRNA 3'-end formation. Nature. 312(5993):473–474. [Abstract] [Google Scholar]
  • Hagenbüchle O, Wellauer PK, Cribbs DL, Schibler U. Termination of transcription in the mouse alpha-amylase gene Amy-2a occurs at multiple sites downstream of the polyadenylation site. Cell. 1984 Oct;38(3):737–744. [Abstract] [Google Scholar]
  • Hashimoto C, Steitz JA. U4 and U6 RNAs coexist in a single small nuclear ribonucleoprotein particle. Nucleic Acids Res. 1984 Apr 11;12(7):3283–3293. [Europe PMC free article] [Abstract] [Google Scholar]
  • Hentschel CC, Birnstiel ML. The organization and expression of histone gene families. Cell. 1981 Aug;25(2):301–313. [Abstract] [Google Scholar]
  • Hernandez N, Keller W. Splicing of in vitro synthesized messenger RNA precursors in HeLa cell extracts. Cell. 1983 Nov;35(1):89–99. [Abstract] [Google Scholar]
  • Higgs DR, Goodbourn SE, Lamb J, Clegg JB, Weatherall DJ, Proudfoot NJ. Alpha-thalassaemia caused by a polyadenylation signal mutation. Nature. 1983 Nov 24;306(5941):398–400. [Abstract] [Google Scholar]
  • Hofer E, Darnell JE., Jr The primary transcription unit of the mouse beta-major globin gene. Cell. 1981 Feb;23(2):585–593. [Abstract] [Google Scholar]
  • Krämer A, Keller W, Appel B, Lührmann R. The 5' terminus of the RNA moiety of U1 small nuclear ribonucleoprotein particles is required for the splicing of messenger RNA precursors. Cell. 1984 Aug;38(1):299–307. [Abstract] [Google Scholar]
  • Krieg PA, Melton DA. Formation of the 3' end of histone mRNA by post-transcriptional processing. Nature. 1984 Mar 8;308(5955):203–206. [Abstract] [Google Scholar]
  • Lerner MR, Steitz JA. Snurps and scyrps. Cell. 1981 Aug;25(2):298–300. [Abstract] [Google Scholar]
  • Madore SJ, Wieben ED, Pederson T. Intracellular site of U1 small nuclear RNA processing and ribonucleoprotein assembly. J Cell Biol. 1984 Jan;98(1):188–192. [Europe PMC free article] [Abstract] [Google Scholar]
  • Manser T, Gesteland RF. Human U1 loci: genes for human U1 RNA have dramatically similar genomic environments. Cell. 1982 May;29(1):257–264. [Abstract] [Google Scholar]
  • Marzluff WF, Brown DT, Lobo S, Wang SS. Isolation and characterization of two linked mouse U1b small nuclear RNA genes. Nucleic Acids Res. 1983 Sep 24;11(18):6255–6270. [Europe PMC free article] [Abstract] [Google Scholar]
  • Mather EL, Nelson KJ, Haimovich J, Perry RP. Mode of regulation of immunoglobulin mu- and delta-chain expression varies during B-lymphocyte maturation. Cell. 1984 Feb;36(2):329–338. [Abstract] [Google Scholar]
  • Mattaj IW, Zeller R. Xenopus laevis U2 snRNA genes: tandemly repeated transcription units sharing 5' and 3' flanking homology with other RNA polymerase II transcribed genes. EMBO J. 1983;2(11):1883–1891. [Europe PMC free article] [Abstract] [Google Scholar]
  • Maxam AM, Gilbert W. A new method for sequencing DNA. Proc Natl Acad Sci U S A. 1977 Feb;74(2):560–564. [Europe PMC free article] [Abstract] [Google Scholar]
  • McDevitt MA, Imperiale MJ, Ali H, Nevins JR. Requirement of a downstream sequence for generation of a poly(A) addition site. Cell. 1984 Jul;37(3):993–999. [Abstract] [Google Scholar]
  • McLauchlan J, Gaffney D, Whitton JL, Clements JB. The consensus sequence YGTGTTYY located downstream from the AATAAA signal is required for efficient formation of mRNA 3' termini. Nucleic Acids Res. 1985 Feb 25;13(4):1347–1368. [Europe PMC free article] [Abstract] [Google Scholar]
  • Montell C, Fisher EF, Caruthers MH, Berk AJ. Inhibition of RNA cleavage but not polyadenylation by a point mutation in mRNA 3' consensus sequence AAUAAA. Nature. 1983 Oct 13;305(5935):600–605. [Abstract] [Google Scholar]
  • Mount SM, Pettersson I, Hinterberger M, Karmas A, Steitz JA. The U1 small nuclear RNA-protein complex selectively binds a 5' splice site in vitro. Cell. 1983 Jun;33(2):509–518. [Abstract] [Google Scholar]
  • Murphy JT, Burgess RR, Dahlberg JE, Lund E. Transcription of a gene for human U1 small nuclear RNA. Cell. 1982 May;29(1):265–274. [Abstract] [Google Scholar]
  • Nevins JR, Darnell JE., Jr Steps in the processing of Ad2 mRNA: poly(A)+ nuclear sequences are conserved and poly(A) addition precedes splicing. Cell. 1978 Dec;15(4):1477–1493. [Abstract] [Google Scholar]
  • Nevins JR, Blanchard JM, Darnell JE., Jr Transcription units of adenovirus type 2. Termination of transcription beyond the poly(A) addition site in early regions 2 and 4. J Mol Biol. 1980 Dec 15;144(3):377–386. [Abstract] [Google Scholar]
  • Nojima H, Kornberg RD. Genes and pseudogenes for mouse U1 and U2 small nuclear RNAs. J Biol Chem. 1983 Jul 10;258(13):8151–8155. [Abstract] [Google Scholar]
  • Price DH, Parker CS. The 3' end of drosophila histone H3 mRNA is produced by a processing activity in vitro. Cell. 1984 Sep;38(2):423–429. [Abstract] [Google Scholar]
  • Roop DR, Kristo P, Stumph WE, Tsai MJ, O'Malley BW. Structure and expression of a chicken gene coding for U1 RNA. Cell. 1981 Mar;23(3):671–680. [Abstract] [Google Scholar]
  • Sheffery M, Marks PA, Rifkind RA. Gene expression in murine erythroleukemia cells. Transcriptional control and chromatin structure of the alpha 1-globin gene. J Mol Biol. 1984 Feb 5;172(4):417–436. [Abstract] [Google Scholar]
  • Simonsen CC, Levinson AD. Analysis of processing and polyadenylation signals of the hepatitis B virus surface antigen gene by using simian virus 40-hepatitis B virus chimeric plasmids. Mol Cell Biol. 1983 Dec;3(12):2250–2258. [Europe PMC free article] [Abstract] [Google Scholar]
  • Skuzeski JM, Lund E, Murphy JT, Steinberg TH, Burgess RR, Dahlberg JE. Synthesis of human U1 RNA. II. Identification of two regions of the promoter essential for transcription initiation at position +1. J Biol Chem. 1984 Jul 10;259(13):8345–8352. [Abstract] [Google Scholar]
  • Stunnenberg HG, Birnstiel ML. Bioassay for components regulating eukaryotic gene expression: a chromosomal factor involved in the generation of histone mRNA 3' termini. Proc Natl Acad Sci U S A. 1982 Oct;79(20):6201–6204. [Europe PMC free article] [Abstract] [Google Scholar]
  • Strub K, Galli G, Busslinger M, Birnstiel ML. The cDNA sequences of the sea urchin U7 small nuclear RNA suggest specific contacts between histone mRNA precursor and U7 RNA during RNA processing. EMBO J. 1984 Dec 1;3(12):2801–2807. [Europe PMC free article] [Abstract] [Google Scholar]
  • Tani T, Watanabe-Nagasu N, Okada N, Ohshima Y. Molecular cloning and characterization of a gene for rat U2 small nuclear RNA. J Mol Biol. 1983 Aug 15;168(3):579–594. [Abstract] [Google Scholar]
  • Watanabe-Nagasu N, Itoh Y, Tani T, Okano K, Koga N, Okada N, Ohshima Y. Structural analysis of gene loci for rat U1 small nuclear RNA. Nucleic Acids Res. 1983 Mar 25;11(6):1791–1801. [Europe PMC free article] [Abstract] [Google Scholar]
  • Weinberg R, Penman S. Metabolism of small molecular weight monodisperse nuclear RNA. Biochim Biophys Acta. 1969 Sep 17;190(1):10–29. [Abstract] [Google Scholar]
  • Westin G, Lund E, Murphy JT, Pettersson U, Dahlberg JE. Human U2 and U1 RNA genes use similar transcription signals. EMBO J. 1984 Dec 20;3(13):3295–3301. [Europe PMC free article] [Abstract] [Google Scholar]
  • Wickens M, Stephenson P. Role of the conserved AAUAAA sequence: four AAUAAA point mutants prevent messenger RNA 3' end formation. Science. 1984 Nov 30;226(4678):1045–1051. [Abstract] [Google Scholar]
  • Wigler M, Pellicer A, Silverstein S, Axel R. Biochemical transfer of single-copy eucaryotic genes using total cellular DNA as donor. Cell. 1978 Jul;14(3):725–731. [Abstract] [Google Scholar]
  • Zhong R, Roeder RG, Heintz N. The primary structure and expression of four cloned human histone genes. Nucleic Acids Res. 1983 Nov 11;11(21):7409–7425. [Europe PMC free article] [Abstract] [Google Scholar]
  • Zieve G, Benecke BJ, Penman S. Synthesis of two classes of small RNA species in vivo and in vitro. Biochemistry. 1977 Oct 4;16(20):4520–4525. [Abstract] [Google Scholar]
  • Zieve G, Penman S. Small RNA species of the HeLa cell: metabolism and subcellular localization. Cell. 1976 May;8(1):19–31. [Abstract] [Google Scholar]
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