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Nucleic Acids Research, 1983, Vol. 11, No. 20 7169-7179
© 1983

MOLECULAR BIOLOGY

Long terminal repeat sequences of intracisternal A particle genes in the Syrian hamster genome: identification of tRNAPhe as a putative primer tRNA

Masao Ono* and Hideyuki Ohishi

Department of Molecular Biology, School of Medicine, Kitasato University Sagamihara-shi, Kanagawa 228, Japan

*To whom correspondence should be addressed

Received August 2, 1983. Revised September 26, 1983. Accepted September 26, 1983.

We have determined the nucleotide sequences of long terminal repeat (LTR) regions of Syrian hamster intracisternal A particle (IAP) genes . The size of the LTRs was 350 base-pairs (bp) and 376 bp in two clones, H10 and H18, respectively. Two LTRs at both ends of the IAP gene were linked to directly repeating 6 bp hamster sequences. Many structural features common to the integrated retroviral LTRs such as "CAT" box, "TATAA" box, polyadenylation signal, and terminal inverted repeat (3 bp), were present on each LTR. The estimated length of R region (about 60 bp) was similar to that of the murine leukemia-sarcoma virus. In contrast, the calculated U5 region of 54 bp was the shortest among those of the retrovirusea so far studied. Furthermore, from the analysis of primer binding sites, phenylalanine tRNA was for the first time identified as a presumed primer tRNA for reverse transcription. These results clearly distinguish Syrian hamster IAP LTRa from other retroviral ones. Based on the comparison of the sequences between Syrian hamster and laboratory mouse LTRs, the structural features peculiar to the IAP LTRa and the origin of the IAP genes are discussed.


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A. H. Lund, M. Duch, and F. S. Pedersen
Selection of functional tRNA primers and primer binding site sequences from a retroviral combinatorial library: identification of new functional tRNA primers in murine leukemia virus replication
Nucleic Acids Res., February 1, 2000; 28(3): 791 - 799.
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