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The 3'-Non-coding Regions of Alpharivus RNAs Contain Repeating Sequences

Ou, Jing-Hsiung and Trent, Dennis W. and Strauss, James H. (1982) The 3'-Non-coding Regions of Alpharivus RNAs Contain Repeating Sequences. Journal of Molecular Biology, 156 (4). pp. 719-730. ISSN 0022-2836. doi:10.1016/0022-2836(82)90138-3.

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We have compared the 3'-terminal non-coding sequences of the RNAs from 10 alphaviruses and found this region to be composed of distinct domains in terms of base composition, degree of sequence conservation, and sequence organization. The first 50 to 60 nucleotides adjacent to the 3'-terminal poly(A) tract are extremely A + U-rich (up to 90% A + U). Of these, the first 19 nucleotides are highly conserved, and we postulate that this conserved sequence serves as a replicase recognition signal. For strains of Venezuelan, Western, and Eastern equine encephalitis viruses, Highlands J virus and Sindbis virus, only the sixth nucleotide of this sequence shows any variation. This conserved region is slightly more variable for Semliki Forest virus and Middelburg virus. The remainder of the A + U rich region shows only limited homology among viruses and may contain signals for polyadenylation. Upstream from the A + U-rich domain, between 60 and 300 nucleotides from the poly(A) tract, there are repeated sequences in each viral RNA. These repeats are up to 60 nucleotides in length and can be either tandemly or nontandemly arranged. The repeated sequences show considerable conservation among closely related viruses, in contrast to the non-repeated sequences in this region which contain little homology.

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EditorSimons, K.Simons-KUNSPECIFIED
Additional Information:© 1982 Academic Press Inc. (London) Ltd. Received 29 October 1981, and in revised form 14 January 1982. We thank E. M. Lenches for preparing chick embryo cell cultures and E. G. Strauss for help in preparing the manuscript. We are grateful to Michael Douglas and Tim Hunkapiller for assistance with the computer work and to Lee Hood for the use of his computer facilities. This work was supported by grants PCM 8022830 from the National Science Foundation and grant GM06965 from the National Institutes of Health. One of the authors (.J.-H.O.) was supported by fellowships from the California Foundation for Biomedical Research and from the Li Ming Scholarship Endowment Fund.
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NSFPCM 8022830
NIHGM 06965
California Foundation for Biomedical ResearchUNSPECIFIED
Li Ming Scholarship Endowment FundUNSPECIFIED
Issue or Number:4
Record Number:CaltechAUTHORS:20160516-151803671
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Official Citation:Jing-Hsiung Ou, Dennis W. Trent, James H. Strauss, The 3′-non-coding regions of alpharivus RNAs contain repeating sequences, Journal of Molecular Biology, Volume 156, Issue 4, 1982, Pages 719-730, ISSN 0022-2836, (
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ID Code:67139
Deposited By: Donna Wrublewski
Deposited On:17 May 2016 14:50
Last Modified:11 Nov 2021 00:27

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