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Volumn 42, Issue 22, 2014, Pages 13963-13968

The separation between the 5'-3' ends in long RNA molecules is short and nearly constant

Author keywords

[No Author keywords available]

Indexed keywords

FUNGAL RNA; MESSENGER RNA; SINGLE STRANDED RNA; VIRUS RNA;

EID: 84927586953     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gku1249     Document Type: Article
Times cited : (27)

References (42)
  • 2
    • 3042767202 scopus 로고    scopus 로고
    • MicroRNAs: Small RNAs with a big role in gene regulation
    • Lin, H. and Gregory, J. H. (2004) MicroRNAs: small RNAs with a big role in gene regulation. Nat. Rev. Gen., 5, 522-531.
    • (2004) Nat. Rev. Gen. , vol.5 , pp. 522-531
    • Lin, H.1    Gregory, J.H.2
  • 3
    • 0037062949 scopus 로고    scopus 로고
    • The natural chemical repertoire of natural ribozymes
    • Doudna, J. and Cech, T. (2002) The natural chemical repertoire of natural ribozymes. Nature, 418, 222-228.
    • (2002) Nature , vol.418 , pp. 222-228
    • Doudna, J.1    Cech, T.2
  • 4
    • 0022609327 scopus 로고
    • Local stability of DNA and RNA secondary structure and its relation to biological functions
    • Wada, A. and Suyama, A. (1986) Local stability of DNA and RNA secondary structure and its relation to biological functions. Prog. Biophys. Mol. Biol., 47, 113-157.
    • (1986) Prog. Biophys. Mol. Biol. , vol.47 , pp. 113-157
    • Wada, A.1    Suyama, A.2
  • 5
    • 0022301477 scopus 로고
    • Alternative splicing caused by RNA secondary structure
    • Solnick, D. (1985) Alternative splicing caused by RNA secondary structure. Cell, 43, 667-676.
    • (1985) Cell , vol.43 , pp. 667-676
    • Solnick, D.1
  • 9
    • 17844391015 scopus 로고    scopus 로고
    • Structural RNA has lower folding energy than random RNA of the same dinucleotide frequency
    • Clote, P., Ferre, F., Kranakis, E. and Krizanc, D. (2005) Structural RNA has lower folding energy than random RNA of the same dinucleotide frequency. RNA, 11, 578-591.
    • (2005) RNA , vol.11 , pp. 578-591
    • Clote, P.1    Ferre, F.2    Kranakis, E.3    Krizanc, D.4
  • 10
    • 33846818594 scopus 로고    scopus 로고
    • Asymptotic expected number of base pairs in optimal secondary structure for random RNA using the Nussinov-Jacobson energy model
    • Clote, P., Kranakis, E., Krizanc, D. and Stacho, L. (2007) Asymptotic expected number of base pairs in optimal secondary structure for random RNA using the Nussinov-Jacobson energy model. Discr. Appl. Math., 157, 759-787.
    • (2007) Discr. Appl. Math. , vol.157 , pp. 759-787
    • Clote, P.1    Kranakis, E.2    Krizanc, D.3    Stacho, L.4
  • 12
    • 0042121256 scopus 로고    scopus 로고
    • Mfold web server for nucleic acid folding and hybridization prediction
    • Zuker, M. (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res., 31, 3406-3415.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3406-3415
    • Zuker, M.1
  • 13
    • 0043123153 scopus 로고    scopus 로고
    • Vienna RNA secondary structure server
    • Hofacker, I. L. (2003) Vienna RNA secondary structure server. Nucleic Acids Res., 31, 3429-3431
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3429-3431
    • Hofacker, I.L.1
  • 15
    • 79955515317 scopus 로고    scopus 로고
    • The end-to-end distance of RNA as a randomly self-paired polymer
    • Fang, L. T. (2011) The end-to-end distance of RNA as a randomly self-paired polymer. J. Theor. Biol., 280, 101-107.
    • (2011) J. Theor. Biol. , vol.280 , pp. 101-107
    • Fang, L.T.1
  • 16
    • 84865794616 scopus 로고    scopus 로고
    • Expected distance between terminal nucleotides of RNA secondary structures
    • Clote, P., Ponty, Y. and Steyaert, J. (2012) Expected distance between terminal nucleotides of RNA secondary structures. J. Math. Biol., 65, 581-599.
    • (2012) J. Math. Biol. , vol.65 , pp. 581-599
    • Clote, P.1    Ponty, Y.2    Steyaert, J.3
  • 17
    • 84863887000 scopus 로고    scopus 로고
    • The 5'-3' distance of RNA secondary structures
    • Han, H. S. W. and Reidys, C. M. J. (2012) The 5'-3' distance of RNA secondary structures. J. Comput. Biol., 19, 867-878.
    • (2012) J. Comput. Biol. , vol.19 , pp. 867-878
    • Han, H.S.W.1    Reidys, C.M.J.2
  • 18
    • 13444259647 scopus 로고    scopus 로고
    • Regulation of cap-dependent translation by eIF4E inhibitory proteins
    • Richter, J. D. and Sonenberg, N. (2005) Regulation of cap-dependent translation by eIF4E inhibitory proteins. Nature, 433, 477-479.
    • (2005) Nature , vol.433 , pp. 477-479
    • Richter, J.D.1    Sonenberg, N.2
  • 19
    • 33646782967 scopus 로고    scopus 로고
    • Cap-independent translation of plant viral RNAs
    • Kneller, E. L., Rakotondrafara, A. M. and Miller, W. A. (2006) Cap-independent translation of plant viral RNAs. Virus Res., 119, 63-75.
    • (2006) Virus Res. , vol.119 , pp. 63-75
    • Kneller, E.L.1    Rakotondrafara, A.M.2    Miller, W.A.3
  • 20
    • 0037303672 scopus 로고    scopus 로고
    • Fine mapping of a cis-acting sequence element in yellow fever virus RNA that is required for RNA replication and cyclization
    • Corver, J., Lenches, E., Smith, K., Robinson, R. A., Sando, T., Strauss, E. G. and Strauss, J. H. (2003) Fine mapping of a cis-acting sequence element in yellow fever virus RNA that is required for RNA replication and cyclization. J. Virol., 77, 2265-2270.
    • (2003) J. Virol. , vol.77 , pp. 2265-2270
    • Corver, J.1    Lenches, E.2    Smith, K.3    Robinson, R.A.4    Sando, T.5    Strauss, E.G.6    Strauss, J.H.7
  • 21
    • 0023445054 scopus 로고
    • Genomic RNAs of influenza viruses are held in a circular conformation in virions and in infected cells by a terminal panhandle
    • Hsu, M. T., Parvin, J. D., Gupta, S., Krystal, M. and Palese, P. (1987) Genomic RNAs of influenza viruses are held in a circular conformation in virions and in infected cells by a terminal panhandle. Proc. Natl Acad. Sci. U. S. A., 84, 8140-8144.
    • (1987) Proc. Natl Acad. Sci. U. S. A. , vol.84 , pp. 8140-8144
    • Hsu, M.T.1    Parvin, J.D.2    Gupta, S.3    Krystal, M.4    Palese, P.5
  • 23
    • 0017180370 scopus 로고
    • Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures
    • Sanger, H. L., Klotz, G., Riesner, D., Gross, H. J. and Kleinschmidt, A. K. (1976) Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures. Proc. Natl Acad. Sci. U. S. A., 73, 3852-3856.
    • (1976) Proc. Natl Acad. Sci. U. S. A. , vol.73 , pp. 3852-3856
    • Sanger, H.L.1    Klotz, G.2    Riesner, D.3    Gross, H.J.4    Kleinschmidt, A.K.5
  • 25
    • 0033553426 scopus 로고    scopus 로고
    • Rapid blue light regulation of a Trichoderma harzianum photolyase gene
    • Berrocal, T. G., Sametz, B. L., Eichenberg, K., Horwitz, B. A. and Herrera, A. (1999) Rapid blue light regulation of a Trichoderma harzianum photolyase gene. J. Biol. Chem., 274, 14288-14294.
    • (1999) J. Biol. Chem. , vol.274 , pp. 14288-14294
    • Berrocal, T.G.1    Sametz, B.L.2    Eichenberg, K.3    Horwitz, B.A.4    Herrera, A.5
  • 26
    • 28044450149 scopus 로고    scopus 로고
    • A complete survey of Trichoderma chitinases reveals three distinct subgroups of family 18 chitinases
    • Seidl, V., Huemer, B., Seiboth, B. and Kubicek, C. P. (2005) A complete survey of Trichoderma chitinases reveals three distinct subgroups of family 18 chitinases. FEBS J., 272, 5923-5939.
    • (2005) FEBS J. , vol.272 , pp. 5923-5939
    • Seidl, V.1    Huemer, B.2    Seiboth, B.3    Kubicek, C.P.4
  • 28
    • 0024094687 scopus 로고
    • Infectious in vitro transcripts from cowpea chlorotic mottle virus cDNA clones and exchange of individual RNA components with brome mosaic virus
    • Allison, R. F., Janda, M. and Ahlquist, P. (1988) Infectious in vitro transcripts from cowpea chlorotic mottle virus cDNA clones and exchange of individual RNA components with brome mosaic virus. J. Virol., 62, 3581-3588.
    • (1988) J. Virol. , vol.62 , pp. 3581-3588
    • Allison, R.F.1    Janda, M.2    Ahlquist, P.3
  • 29
    • 84857959507 scopus 로고    scopus 로고
    • Self-assembly of viral capsid protein and RNA molecules of different sizes: Requirement for a specific high protein/RNA mass ratio
    • Cadena, R. D., Comas-Garcia, M., Rees, F. G., Rao, A. L. N., Knobler, C. M. and Gelbart, W. M. (2012) Self-assembly of viral capsid protein and RNA molecules of different sizes: requirement for a specific high protein/RNA mass ratio. J. Virol., 86, 3318-3326
    • (2012) J. Virol. , vol.86 , pp. 3318-3326
    • Cadena, R.D.1    Comas-Garcia, M.2    Rees, F.G.3    Rao, A.L.N.4    Knobler, C.M.5    Gelbart, W.M.6
  • 30
    • 0033813064 scopus 로고    scopus 로고
    • Measuring conformational dynamics of biomolecules by single molecule fluorescence spectroscopy
    • Weiss, S. (2000) Measuring conformational dynamics of biomolecules by single molecule fluorescence spectroscopy. Nat. Struc. Biol., 7, 724-729.
    • (2000) Nat. Struc. Biol. , vol.7 , pp. 724-729
    • Weiss, S.1
  • 31
    • 79952255056 scopus 로고    scopus 로고
    • Accurate distance determination of nucleic acids via förster resonance energy transfer: Implications of dye linker length and rigidity
    • Sindbert, S., Stanislav, K., Hien, N., Kienzler, A., Clima, L., Bannwarth, W., Appel, B., Müller, S. and Seidel, C. A. M. (2011) Accurate distance determination of nucleic acids via förster resonance energy transfer: implications of dye linker length and rigidity. J. Am. Chem. Soc., 133, 2463-2480.
    • (2011) J. Am. Chem. Soc. , vol.133 , pp. 2463-2480
    • Sindbert, S.1    Stanislav, K.2    Hien, N.3    Kienzler, A.4    Clima, L.5    Bannwarth, W.6    Appel, B.7    Müller, S.8    Seidel, C.A.M.9
  • 32
    • 0032419499 scopus 로고    scopus 로고
    • On the role of magnesium ions in RNA stability
    • Misra, V. K. and Draper, D. E. (1998) On the role of magnesium ions in RNA stability. Biopolymers, 48, 113-135.
    • (1998) Biopolymers , vol.48 , pp. 113-135
    • Misra, V.K.1    Draper, D.E.2
  • 33
    • 0346888665 scopus 로고    scopus 로고
    • A statistical sampling algorithm for RNA secondary structure prediction
    • Ding, Y. and Lawrence, C. E. (2003) A statistical sampling algorithm for RNA secondary structure prediction. Nucleic Acids Res., 31, 7280-7301.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 7280-7301
    • Ding, Y.1    Lawrence, C.E.2
  • 34
    • 69249217649 scopus 로고    scopus 로고
    • Regulatory roles of natural antisense transcripts
    • Faghihi, M. A. and Wahlestedt, C. (2009) Regulatory roles of natural antisense transcripts. Nat. Rev. Mol. Cell Biol., 10, 637-643.
    • (2009) Nat. Rev. Mol. Cell Biol. , vol.10 , pp. 637-643
    • Faghihi, M.A.1    Wahlestedt, C.2
  • 37
    • 0033534516 scopus 로고    scopus 로고
    • Flexibility of single-stranded DNA: Use of gapped duplex helices to determine the persistence lengths of poly (dT) and poly (dA)
    • Mills, J. B., Vacano, E. and Hagerman, P. J. (1999) Flexibility of single-stranded DNA: use of gapped duplex helices to determine the persistence lengths of poly (dT) and poly (dA). J. Mol. Biol. 285, 245-257.
    • (1999) J. Mol. Biol , vol.285 , pp. 245-257
    • Mills, J.B.1    Vacano, E.2    Hagerman, P.J.3
  • 38
    • 20444453307 scopus 로고    scopus 로고
    • Protein length in eukaryotic and prokariotic proteomes
    • Brocchieri, L. and Karlin, S. (2005) Protein length in eukaryotic and prokariotic proteomes. Nucleic Acids Res., 33, 3390-3400.
    • (2005) Nucleic Acids Res. , vol.33 , pp. 3390-3400
    • Brocchieri, L.1    Karlin, S.2
  • 40
    • 84856377506 scopus 로고    scopus 로고
    • Mathematical modeling and comparison of protein size distribution in different plant, animal, fungal and microbial species reveals a negative correlation between protein size and protein number, thus providing insight into the evolution of proteomes
    • Tiessen, A., Pérez-Rodríguez, P. and Delaye-Arredondo, L. J. (2012) Mathematical modeling and comparison of protein size distribution in different plant, animal, fungal and microbial species reveals a negative correlation between protein size and protein number, thus providing insight into the evolution of proteomes. BMC Res. Notes. 5, 85-107.
    • (2012) BMC Res. Notes , vol.5 , pp. 85-107
    • Tiessen, A.1    Pérez-Rodríguez, P.2    Delaye-Arredondo, L.J.3
  • 41
    • 0017653033 scopus 로고
    • Transcription termination at the trp operon attenuators of Escherichia coli and Salmonella typhimurium: RNA secondary structure and regulation of termination
    • Lee, F. and Yanofsky, C. (1977) Transcription termination at the trp operon attenuators of Escherichia coli and Salmonella typhimurium: RNA secondary structure and regulation of termination. Proc. Natl Acad. Sci. U. S. A., 74, 4365-4369.
    • (1977) Proc. Natl Acad. Sci. U. S. A. , vol.74 , pp. 4365-4369
    • Lee, F.1    Yanofsky, C.2
  • 42
    • 0026147304 scopus 로고
    • Titin, a huge, elastic sarcomeric protein with a probable role in morphogenesis
    • Fulton, A. and Williams, B. (1991) Titin, a huge, elastic sarcomeric protein with a probable role in morphogenesis. BioEssays, 13, 157-161.
    • (1991) BioEssays , vol.13 , pp. 157-161
    • Fulton, A.1    Williams, B.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.