Skip to main content
Proceedings of the National Academy of Sciences of the United States of America logoLink to Proceedings of the National Academy of Sciences of the United States of America
. 1984 Feb;81(4):1012–1016. doi: 10.1073/pnas.81.4.1012

Rearranged sequences of a human Kpn I element.

S S Potter
PMCID: PMC344753  PMID: 6322182

Abstract

The complete nucleotide sequence of a human Kpn I element inserted into alpha-satellite DNA is presented. This sequence reveals several features of interest. First, a large block of DNA normally associated with Kpn I elements has been deleted. Second, the order of the remaining sequences is permuted in a manner that cannot be accounted for by simple inversion. Third, a significant open reading frame of 675 bases is detected.

Full text

PDF
1012

Images in this article

Selected References

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

  1. Adams J. W., Kaufman R. E., Kretschmer P. J., Harrison M., Nienhuis A. W. A family of long reiterated DNA sequences, one copy of which is next to the human beta globin gene. Nucleic Acids Res. 1980 Dec 20;8(24):6113–6128. doi: 10.1093/nar/8.24.6113. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Albertini A. M., Hofer M., Calos M. P., Miller J. H. On the formation of spontaneous deletions: the importance of short sequence homologies in the generation of large deletions. Cell. 1982 Jun;29(2):319–328. doi: 10.1016/0092-8674(82)90148-9. [DOI] [PubMed] [Google Scholar]
  3. Calos M. P., Miller J. H. Transposable elements. Cell. 1980 Jul;20(3):579–595. doi: 10.1016/0092-8674(80)90305-0. [DOI] [PubMed] [Google Scholar]
  4. Carlson M., Brutlag D. One of the copia genes is adjacent to satellite DNA in Drosophila melanogaster. Cell. 1978 Nov;15(3):733–742. doi: 10.1016/0092-8674(78)90259-3. [DOI] [PubMed] [Google Scholar]
  5. Davidson E. H., Galau G. A., Angerer R. C., Britten R. J. Comparative aspects of DNA organization in Metazoa. Chromosoma. 1975 Jul 21;51(3):253–259. doi: 10.1007/BF00284818. [DOI] [PubMed] [Google Scholar]
  6. Dawid I. B., Long E. O., DiNocera P. P., Pardue M. L. Ribosomal insertion-like elements in Drosophila melanogaster are interspersed with mobile sequences. Cell. 1981 Aug;25(2):399–408. doi: 10.1016/0092-8674(81)90058-1. [DOI] [PubMed] [Google Scholar]
  7. Deininger P. L., Schmid C. W. An electron microscope study of the DNA sequence organization of the human genome. J Mol Biol. 1976 Sep 25;106(3):773–790. doi: 10.1016/0022-2836(76)90264-3. [DOI] [PubMed] [Google Scholar]
  8. Grimaldi G., Singer M. F. Members of the KpnI family of long interspersed repeated sequences join and interrupt alpha-satellite in the monkey genome. Nucleic Acids Res. 1983 Jan 25;11(2):321–338. doi: 10.1093/nar/11.2.321. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Hollis G. F., Hieter P. A., McBride O. W., Swan D., Leder P. Processed genes: a dispersed human immunoglobulin gene bearing evidence of RNA-type processing. Nature. 1982 Mar 25;296(5855):321–325. doi: 10.1038/296321a0. [DOI] [PubMed] [Google Scholar]
  10. Holmes D. S., Quigley M. A rapid boiling method for the preparation of bacterial plasmids. Anal Biochem. 1981 Jun;114(1):193–197. doi: 10.1016/0003-2697(81)90473-5. [DOI] [PubMed] [Google Scholar]
  11. Jagadeeswaran P., Forget B. G., Weissman S. M. Short interspersed repetitive DNA elements in eucaryotes: transposable DNA elements generated by reverse transcription of RNA pol III transcripts? Cell. 1981 Oct;26(2 Pt 2):141–142. doi: 10.1016/0092-8674(81)90296-8. [DOI] [PubMed] [Google Scholar]
  12. Jelinek W. R., Schmid C. W. Repetitive sequences in eukaryotic DNA and their expression. Annu Rev Biochem. 1982;51:813–844. doi: 10.1146/annurev.bi.51.070182.004121. [DOI] [PubMed] [Google Scholar]
  13. Karin M., Richards R. I. Human metallothionein genes--primary structure of the metallothionein-II gene and a related processed gene. Nature. 1982 Oct 28;299(5886):797–802. doi: 10.1038/299797a0. [DOI] [PubMed] [Google Scholar]
  14. Kole L. B., Haynes S. R., Jelinek W. R. Discrete and heterogeneous high molecular weight RNAs complementary to a long dispersed repeat family (a possible transposon) of human DNA. J Mol Biol. 1983 Apr 5;165(2):257–286. doi: 10.1016/s0022-2836(83)80257-5. [DOI] [PubMed] [Google Scholar]
  15. Lerman M. I., Thayer R. E., Singer M. F. Kpn I family of long interspersed repeated DNA sequences in primates: polymorphism of family members and evidence for transcription. Proc Natl Acad Sci U S A. 1983 Jul;80(13):3966–3970. doi: 10.1073/pnas.80.13.3966. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Maio J. J., Brown F. L., McKenna W. G., Musich P. R. Toward a molecular paleontology of primate genomes. II. The KpnI families of alphoid DNAs. Chromosoma. 1981;83(1):127–144. doi: 10.1007/BF00286020. [DOI] [PubMed] [Google Scholar]
  17. Manuelidis L. Nucleotide sequence definition of a major human repeated DNA, the Hind III 1.9 kb family. Nucleic Acids Res. 1982 May 25;10(10):3211–3219. doi: 10.1093/nar/10.10.3211. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. 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]
  19. Potter S. S., Brorein W. J., Jr, Dunsmuir P., Rubin G. M. Transposition of elements of the 412, copia and 297 dispersed repeated gene families in Drosophila. Cell. 1979 Jun;17(2):415–427. doi: 10.1016/0092-8674(79)90168-5. [DOI] [PubMed] [Google Scholar]
  20. Potter S. S., Jones R. S. Unusual domains of human alphoid satellite DNA with contiguous non-satellite sequences: sequence analysis of a junction region. Nucleic Acids Res. 1983 May 25;11(10):3137–3153. doi: 10.1093/nar/11.10.3137. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. 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]
  22. Schmeckpeper B. J., Willard H. F., Smith K. D. Isolation and characterization of cloned human DNA fragments carrying reiterated sequences common to both autosomes and the X chromosome. Nucleic Acids Res. 1981 Apr 24;9(8):1853–1872. doi: 10.1093/nar/9.8.1853. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Schmid C. W., Jelinek W. R. The Alu family of dispersed repetitive sequences. Science. 1982 Jun 4;216(4550):1065–1070. doi: 10.1126/science.6281889. [DOI] [PubMed] [Google Scholar]
  24. Shafit-Zagardo B., Brown F. L., Maio J. J., Adams J. W. KpnI families of long, interspersed repetitive DNAs associated with the human beta-globin gene cluster. Gene. 1982 Dec;20(3):397–407. doi: 10.1016/0378-1119(82)90208-6. [DOI] [PubMed] [Google Scholar]
  25. Shafit-Zagardo B., Brown F. L., Zavodny P. J., Maio J. J. Transcription of the KpnI families of long interspersed DNAs in human cells. Nature. 1983 Jul 21;304(5923):277–280. doi: 10.1038/304277a0. [DOI] [PubMed] [Google Scholar]
  26. Singer M. F. Highly repeated sequences in mammalian genomes. Int Rev Cytol. 1982;76:67–112. doi: 10.1016/s0074-7696(08)61789-1. [DOI] [PubMed] [Google Scholar]
  27. Smith G. P. Unequal crossover and the evolution of multigene families. Cold Spring Harb Symp Quant Biol. 1974;38:507–513. doi: 10.1101/sqb.1974.038.01.055. [DOI] [PubMed] [Google Scholar]
  28. 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]
  29. Spradling A. C., Rubin G. M. Drosophila genome organization: conserved and dynamic aspects. Annu Rev Genet. 1981;15:219–264. doi: 10.1146/annurev.ge.15.120181.001251. [DOI] [PubMed] [Google Scholar]
  30. Streisinger G., Okada Y., Emrich J., Newton J., Tsugita A., Terzaghi E., Inouye M. Frameshift mutations and the genetic code. This paper is dedicated to Professor Theodosius Dobzhansky on the occasion of his 66th birthday. Cold Spring Harb Symp Quant Biol. 1966;31:77–84. doi: 10.1101/sqb.1966.031.01.014. [DOI] [PubMed] [Google Scholar]
  31. Thayer R. E., Singer M. F. Interruption of an alpha-satellite array by a short member of the KpnI family of interspersed, highly repeated monkey DNA sequences. Mol Cell Biol. 1983 Jun;3(6):967–973. doi: 10.1128/mcb.3.6.967. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Van Arsdell S. W., Denison R. A., Bernstein L. B., Weiner A. M., Manser T., Gesteland R. F. Direct repeats flank three small nuclear RNA pseudogenes in the human genome. Cell. 1981 Oct;26(1 Pt 1):11–17. doi: 10.1016/0092-8674(81)90028-3. [DOI] [PubMed] [Google Scholar]
  33. Wensink P. C., Tabata S., Pachl C. The clustered and scrambled arrangement of moderately repetitive elements in Drosophila DNA. Cell. 1979 Dec;18(4):1231–1246. doi: 10.1016/0092-8674(79)90235-6. [DOI] [PubMed] [Google Scholar]
  34. Wilde C. D., Crowther C. E., Cripe T. P., Gwo-Shu Lee M., Cowan N. J. Evidence that a human beta-tubulin pseudogene is derived from its corresponding mRNA. Nature. 1982 May 6;297(5861):83–84. doi: 10.1038/297083a0. [DOI] [PubMed] [Google Scholar]

Articles from Proceedings of the National Academy of Sciences of the United States of America are provided here courtesy of National Academy of Sciences

RESOURCES