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. 1984 Jun 25;12(12):4893–4906. doi: 10.1093/nar/12.12.4893

Genes and pseudogenes in a reiterated rat tRNA gene cluster.

A Rosen, S Sarid, V Daniel
PMCID: PMC318887  PMID: 6330688

Abstract

A 13.4 kb rat genomic DNA fragment containing two related tRNA gene clusters was isolated from a rat lambda recombinant and analyzed for gene arrangement and nucleotide sequence. One cluster was found to contain a tRNALeuCUG gene while the second contained a tRNALeuCUA pseudogene with multiple base substitutions. The tRNALeu gene was found to possess an intact coding region and a functional transcription termination signal at the 3' end as demonstrated by in vitro transcription and processing of precursors to mature size tRNA. The first tRNA gene cluster was found to contain in addition to tRNALeu, three other transcribable genes coding for tRNAAspGAC(U), tRNAGlyGGA(G) and tRNAGluGAG; the second cluster contained in addition to tRNALeu pseudogene, the tRNAAsp tRNAGly and tRNAGlu genes. Examination of flanking sequences of the corresponding tRNA genes in the two clusters shows no homology at the 5' ends and partial conservation of sequences at the 3'-end region. Genomic rat DNA blot hybridizations show that the tRNALeu gene is distributed together with the tRNAAsp, tRNAGly and tRNAGlu on a 10 fold repeat of 3.2 kb EcoRI fragment.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Allison D. S., Goh S. H., Hall B. D. The promoter sequence of a yeast tRNAtyr gene. Cell. 1983 Sep;34(2):655–664. doi: 10.1016/0092-8674(83)90398-7. [DOI] [PubMed] [Google Scholar]
  2. Beckmann J. S., Johnson P. F., Abelson J. Cloning of yeast transfer RNA genes in Escherichia coli. Science. 1977 Apr 8;196(4286):205–208. doi: 10.1126/science.322282. [DOI] [PubMed] [Google Scholar]
  3. Clarkson S. G., Birnstiel M. L., Serra V. Reiterated transfer RNA genes of Xenopus laevis. J Mol Biol. 1973 Sep 15;79(2):391–410. doi: 10.1016/0022-2836(73)90013-2. [DOI] [PubMed] [Google Scholar]
  4. Clarkson S. G., Kurer V., Smith H. O. Sequence organization of a cloned tDNA met fragment from Xenopus laevis. Cell. 1978 Jul;14(3):713–724. doi: 10.1016/0092-8674(78)90253-2. [DOI] [PubMed] [Google Scholar]
  5. Feldman H. Arangement of transfer-RNA -genes in yeast. Nucleic Acids Res. 1976 Sep;3(9):2379–2386. doi: 10.1093/nar/3.9.2379. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Goddard J. P., Squire M., Bienz M., Smith J. D. A human tRNAGlu gene of high transcriptional activity. Nucleic Acids Res. 1983 May 11;11(9):2551–2562. doi: 10.1093/nar/11.9.2551. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Han J. H., Harding J. D. Isolation and nucleotide sequence of a mouse histidine tRNA gene. Nucleic Acids Res. 1982 Aug 25;10(16):4891–4900. doi: 10.1093/nar/10.16.4891. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Hershey N. D., Davidson N. Two drosophila melanogaster tRNAGly genes are contained in a direct duplication at chromosomal locus 56F. Nucleic Acids Res. 1980 Nov 11;8(21):4899–4910. doi: 10.1093/nar/8.21.4899. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Hosbach H. A., Silberklang M., McCarthy B. J. Evolution of a D. melanogaster glutamate tRNA gene cluster. Cell. 1980 Aug;21(1):169–178. doi: 10.1016/0092-8674(80)90124-5. [DOI] [PubMed] [Google Scholar]
  10. Hu J. C., Cote B. D., Lund E., Dahlberg J. E. Isolation and characterization of genomic mouse DNA clones containing sequences homologous to tRNAs and 5S rRNA. Nucleic Acids Res. 1983 Jul 25;11(14):4809–4821. doi: 10.1093/nar/11.14.4809. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Lasser-Weiss M., Bawnik N., Rosen A., Sarid S., Daniel V. Isolation and characterization of cloned rat DNA fragment carrying tRNA genes. Nucleic Acids Res. 1981 Nov 25;9(22):5965–5978. doi: 10.1093/nar/9.22.5965. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
  13. Olson M. V., Montgomery D. L., Hopper A. K., Page G. S., Horodyski F., Hall B. D. Molecular characterisation of the tyrosine tRNA genes of yeast. Nature. 1977 Jun 16;267(5612):639–641. doi: 10.1038/267639a0. [DOI] [PubMed] [Google Scholar]
  14. Randerath K., Agrawal H. P., Randerath E. Tumor mitochondrial transfer RNAs: the nucleotide sequence of mitochondrial tRNALeuUAG from Morris hepatoma 5123D. Biochem Biophys Res Commun. 1981 May 29;100(2):732–737. doi: 10.1016/s0006-291x(81)80236-7. [DOI] [PubMed] [Google Scholar]
  15. Rigby P. W., Dieckmann M., Rhodes C., Berg P. Labeling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I. J Mol Biol. 1977 Jun 15;113(1):237–251. doi: 10.1016/0022-2836(77)90052-3. [DOI] [PubMed] [Google Scholar]
  16. Roy K. L., Cooke H., Buckland R. Nucleotide sequence of a segment of human DNA containing the three tRNA genes. Nucleic Acids Res. 1982 Nov 25;10(22):7313–7322. doi: 10.1093/nar/10.22.7313. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Santos T., Zasloff M. Comparative analysis of human chromosomal segments bearing nonallelic dispersed tRNAimet genes. Cell. 1981 Mar;23(3):699–709. doi: 10.1016/0092-8674(81)90433-5. [DOI] [PubMed] [Google Scholar]
  18. Schmidt O., Mao J. I., Silverman S., Hovemann B., Söll D. Specific transcription of eukaryotic tRNA genes in Xenopus germinal vesicle extracts. Proc Natl Acad Sci U S A. 1978 Oct;75(10):4819–4823. doi: 10.1073/pnas.75.10.4819. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Schweizer E., MacKechnie C., Halvorson H. O. The redundancy of ribosomal and transfer RNA genes in Saccharomyces cerevisiae. J Mol Biol. 1969 Mar 14;40(2):261–277. doi: 10.1016/0022-2836(69)90474-4. [DOI] [PubMed] [Google Scholar]
  20. Sekiya T., Kuchino Y., Nishimura S. Mammalian tRNA genes: nucleotide sequence of rat genes for tRNAAsp, tRNAGly and tRNAGlu. Nucleic Acids Res. 1981 May 25;9(10):2239–2250. doi: 10.1093/nar/9.10.2239. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Sekiya T., Nishizawa R., Matsuda K., Taya Y., Nishimura S. A rat tRNA gene cluster containing the genes for tRNAPro and tRNALys. Analysis of nucleotide sequences of the genes and the surrounding regions. Nucleic Acids Res. 1982 Oct 25;10(20):6411–6419. doi: 10.1093/nar/10.20.6411. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Smith H. O., Birnstiel M. L. A simple method for DNA restriction site mapping. Nucleic Acids Res. 1976 Sep;3(9):2387–2398. doi: 10.1093/nar/3.9.2387. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Southern E. M. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol. 1975 Nov 5;98(3):503–517. doi: 10.1016/s0022-2836(75)80083-0. [DOI] [PubMed] [Google Scholar]
  24. Wahl G. M., Stern M., Stark G. R. Efficient transfer of large DNA fragments from agarose gels to diazobenzyloxymethyl-paper and rapid hybridization by using dextran sulfate. Proc Natl Acad Sci U S A. 1979 Aug;76(8):3683–3687. doi: 10.1073/pnas.76.8.3683. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Weber L., Berger E. Base sequence complexity of the stable RNA species of Drosophila melanogaster. Biochemistry. 1976 Dec 14;15(25):5511–5519. doi: 10.1021/bi00670a015. [DOI] [PubMed] [Google Scholar]

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