Student or educator? Sign up with your school email and get 6 months of Pro free.
CoChat
Sign Up
Cited by 108

The DOI matches its Crossref record.

Prototypic sequences for human repetitive DNA

Jurka, Jerzy, Walichiewicz, Jolanta, Milosavljevic, Aleksandar·1992·Journal of Molecular Evolution
DOI 10.1007/bf00161166
Open this paper in CoChat — free account

Abstract

We report a collection of 53 prototypic sequences representing known families of repetitive elements from the human genome. The prototypic sequences are either consensus sequences or selected examples of repetitive sequences. The collection includes: prototypes for high and medium reiteration frequency interspersed repeats, long terminal repeats of endogenous retroviruses, alphoid repeats, telomere-associated repeats, and some miscellaneous repeats. The collection is annotated and available electronically.

Overview

Integrity signals

Registry

Crossref · 10.1007/bf00161166

Cites

Statistics

Recomputing p-values needs the paper’s full text.

Verification

Claims the paper makes

This paper’s full text isn’t openly available, so its claims and self-check weren’t run. The registry and citation checks still apply.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Citations

Cites

No references could be resolved yet.

Research works printed but not linked: 61

  1. Armour JAL, Wong Z, Wilson V, Royle NJ, Jeffreys AJ (1989) Sequences flanking the repeat arrays of human minisatellites: association with tandem and dispersed repeat elements. Nucl Acids Res 17:4925?4935 · DOI
  2. Bancroft JD, Schaefer LA, Degen SJF (1990) Characterization of the Alu-rich 5?-flanking region of the human prothrombin-encoding gene: identification of a positive cis-acting element that regulates liver-specific expression. Gene 95:253?260 · DOI
  3. Bosma PJ, Kooistra T, Siemieniak DR, Slighton JL (1991) Further characterization of the 5?-flanking DNA of the gene encoding human plasminogen activator inhibitor-1. Gene 100: 261?266 · DOI
  4. Brack-Werner R, Barton DE, Werner T, Foellmer BE, LeibMoesch C, Francke U, Erfle V, Hehlmann R (1989) Human SSAV-related endogenous retroviral element: LTR-like sequence and chromosomal localization of 18g21. Genomics 4:68?75 · DOI
  5. Britten RJ, Baron WF, Stout D, Davidson EH (1988) Sources and evolution of human Alu repeated sequences. Proc Natl Acad Sci USA 85:4770?4774 · DOI
  6. Brown WR, MacKinnon PJ, Villasante A, Spurr N, Buckle VJ, Dobson MJ (1990) Structure and polymorphism of human telomere-associated DNA. Cell 63:119?132 · DOI · Paper page
  7. Brownell E, Mittereder N, Rice NR (1989) A human rel protooncogene cDNA containing an Ain fragment as potential coding exon. Oncogene 4:935?942
  8. Caras IW, Davitz MA, Rhee L, Weddell G, Martin Jr DW, Nussenzweig V (1987) Cloning of decay-accelerating factor suggests the novel use of splicing to generate two proteins. Nature 325:545?549 · DOI · Paper page
  9. Chen SJ, Chen Z, d'Auriol L, Le Coniat M, Grausz D, Berger R (1989) Phl+ brc ? acute leukemias: implications of Alu sequences in a chromosomal translocation occurring in the new cluster region within the BCR gene. Oncogene 4:195?202
  10. Chuat J-C, Raisonnier A, Etienne J, Galibert F (1992) The lipoprotein lipase-encoding human gene: sequence from intron-6 to intron-9 and presence in intron-7 of a 40-million-year-old Alu sequence. Gene 110:257?261 · DOI
  11. Cohen M, Powers M, O'Connell C, Kato N (1985) The nucleotide sequence of the env gene from the human provirus ERV3 and isolation and characterization of an ERV3-specific cDNA. Virology 147:449?458 · DOI
  12. Cross SH, Lindsey J, Fantes J, McKay S, McGill N, Cooke H (1990) The structure of a subterminal repeated sequence present on many human chromosomes. Nucleic Acids Res 18:6649?6657 · DOI
  13. Das HK, Jackson CL, Miller DA, Leff T, Breslow JL (1987) The human apolipoprotein CII gene sequence contains a novel chromosome 19 specific minisatellite in its third intron. J Biol Chem 262:4787?4793 · DOI
  14. Degen SJ, Davie EW (1987) Nucleotide sequence for human prothrombin. Biochemistry 26:6165?6167 · DOI
  15. Del Pozzo G, Guardiola J (1990) A SINE insertion provides information on the divergence of the HLA-DQA1 and HLA-DQA2 genes. Immunogenetics 31:229?232 · DOI
  16. Donehower LA, Slagle BL, Wilde M, Darlington G, Butel JS (1989) Identification of a conserved sequence in the noncoding regions of many human genes. Nucl Acids Res 17: 699?710 · DOI
  17. Eckert RL, Green H (1986) Structure and evolution of the human involucrin gene. Cell 46:583?589 · DOI · Paper page
  18. Epstein ND, Karlsson S, O'Brien S, Modi W, Moulton A, Nienhuis AW (1987) A new moderately repetitive DNA sequence family of novel organization. Nucleic Acids Res 15:2327?2341 · DOI
  19. Gibbs PEM, Zielinski R, Boyd C, Dugaiczyk A (1987) Structure, polymorphism and novel repeated DNA elements revealed by a complete sequence of the human a-fetoprotein gene. Biochemistry 26:1332?1343 · DOI
  20. Groffen J, Hermans A, Grosveld G, Heisterkamp N (1989) Molecular analysis of chromosome breakpoints. Prog Nucleic Acid Res Mol Biol 36:281?300 · DOI
  21. Harada F, Tsukada N, Kato N (1987) Isolation of three kinds of human endogenous retrovirus-like sequence using tRNA Pro as a probe. Nucleic Acids Res 15:9153?9162 · DOI
  22. Hattori M, Hidaka S, Sakaki Y (1985) Sequence analysis of a KpnI family member near the 3? end of human beta-globin gene. Nucleic Acids Res 13:7813?7827 · DOI
  23. Heller M, Flemington E, Kieff E, Deininger P (1985) Repeat arrays in cellular DNA related to the Epstein-Barr virus IR3 repeat. Mol Cell Biol 5:457?465 · DOI
  24. Hu X, Ray PN, Worton RG (1991) Mechanisms of tandem duplication in the Duchenne muscular dystrophy gene include both homologous and nonhomologous intrachromosomal recombination. EMBO J 10:2471?2477 · DOI
  25. Humphries P, MacCabe AP, Spencer RA, Humphries MM, Pearson C (1985) Structural and transcriptional properties associated with a member of a new family of conserved short dispersed repeated elements in human DNA. Gene 39:255?261 · DOI
  26. Jagadeeswaran P, Biro PA, Tuan D, Pan J, Forget BG, Weissman SM (1982) Interspersed repetitive DNA sequences of the human genome: are they transposons? Prog Clin Biol Res 103:29?35
  27. Jurka J (1990) Novel families of interspersed repetitive elements from the human genome. Nucleic Acids Res 18:137?141 · DOI
  28. Jurka J, Smith T (1988) A fundamental division in the Alu family of repeated sequences. Proc Natl Acad Sci USA 85:4775?4778 · DOI
  29. Jurka J, Milosavljevic A (1991) Reconstruction and analysis of human Alu genes. J Mol Evol 32:105?121 · DOI · Paper page
  30. Jurka J (1989) Subfamily structure and evolution of the human L1 family of repetitive sequences. J Mol Evol 29:496?503 · DOI
  31. Jurka J, Smith TF, Labuda D (1988) Small cytoplasmic Ro RNA pseudogene and an Alu repeat in the human alphal-globin gene. Nucleic Acids Res 16:766 · DOI
  32. Kaplan DJ, Duncan CH (1990) Novel short interspersed repeat in human DNA. Nucleic Acids Res 18:192?192 · DOI
  33. Kaplan DJ, Jurka J, Solus JF, Duncan CH (1991) Medium reiteration frequency repetitive sequences in the human genome. Nucleic Acids Res 19:4731?4738 · DOI
  34. Korotkov EV (1991) New family of widespread MB1 repeats in the human genome. Mol Biol (USSR) 25:250?263
  35. La Mantia G, Pengue G, Maglione D, Pannuti A, Pascucci A, Lania L (1989) Identification of new human repetitive sequences: characterization of the corresponding cDNAs and their expression in embryonal carcinoma cells. Nucleic Acids Res 17:5913?5922 · DOI
  36. Landsman D, McBride OW, Soares N, Crippa MP, Srikantha T, Bustin M (1988) Chromosomal protein HMG-14: Identification, characterization, and localization of a functional gene from the large human multigene family. J Biol Chem 264: 3421?3427 · DOI
  37. Lawrance SK, Das HK, Pan J, Weissman SM (1985) The genomic organization and nucleotide sequence of the HLA-SB(DP) alpha gene. Nucleic Acids Res 13:7515?7528 · DOI
  38. Lerman MA, Russell DW, Goldstein JL, Brown MS (1987) AluAlu recombination deletes splice acceptor sites and produces secreted low density lipoprotein receptor in a subject with familial hypercholesterolemia. J Biol Chem 262:3354?3361 · DOI · Paper page
  39. Mager DL, Freeman JD (1987) Human endogenous retrovirus-like genome with type C pol sequences and gag sequences related to human T-cell lymphotropic viruses. J Virol 61: 4060?4066 · DOI
  40. May FE, Westley BR (1986) Structure of a human retroviral sequence related to mouse mammary tumor virus. J Virol 60:743?749 · DOI
  41. Mermer B, Colb M, Krontiris TG (1987) A family of short interspersed repeats is associated with tandemly repetitive DNA in the human genome. Proc Natl Acad Sci USA 84:3320?3324 · DOI
  42. Metzdorf R, Goettert E, Blin N (1988) A novel centromeric repetitive DNA from human chromosome 22. Chromosoma 97: 154?158 · DOI
  43. Misra R, Shih A, Rush M (1987) Cloned extrachromosomal circular DNA copies of the human transposable element THE-1 are related predominantly to a single type of family member. J Mol Biol 196:233?243 · DOI
  44. Mitchell GA, Labuda D, Fontaine G, Saudubray JM, Bonnefont JP, Lyonnet S, Brody LC, Steel G, Obie C, Vallee D (1991) Splice-mediated insertion of an Alu sequence inactivates ornithine d-aminotransferase: a role for Alu sequence in human mutation. Proc Natl Acad Sci USA 88:815?819 · DOI
  45. Nelson DL, Ledbetter SA, Corbo L, Victoria MF, Ramirez-Solis R, Webster TD, Ledbetter DH, Caskey CT (1989) Alu polymerase chain reaction: a method for rapid isolation of human-specific sequences from complex DNA sources. Proc Natl Acad Sci USA 86:6686?6690 · DOI
  46. Okada N (1991) SINEs. Curr Opinion in Genetics & Development 1:498?504 · DOI
  47. Ono M (1986) Molecular cloning and long terminal repeat sequences of human endogenous retrovirus genes related to types A and B retrovirus genes. J Virol 58:937?944 · DOI
  48. Paulson KE, Deka N, Schmid CW, Misra R, Schindler CW, Rush MG, Kadyk L, Leinwand L (1985) A transposon-like element in human DNA. Nature 316:359?361 · DOI
  49. Picado-Leonard J, Miller WL (1987) Cloning and sequence of the human gene for P450c17 (steroid 17-alpha-hydroxylase/17,20 lyase): similarity with the gene for P450c21. DNA 6:439?448 · DOI · Paper page
  50. Post TW, Arce MA, Liszewski MK, Thompson ES, Atkison JP, Lublin DM (1990) Structure of the gene for human complement protein decay-accelerating factor. J Immunol 144:740?744 · DOI
  51. Raisonnier A (1991) Duplication of the apolipoprotein C-I gene occurred about forty million years ago. J Mol Evol 32:211?219
  52. Rogan PK, Pan J, Weissman SM (1987) L1 repeat elements in the human epsilon-G-gamma globin gene intergenic region: Sequence analysis and concerted evolution within this family. Mol Biol Evol 4:327?342
  53. Steele PE, Rabson AB, Bryan T, Martin MA (1984) Distinctive termini characterize two families of human endogenous retroviral sequences. Science 225:943?947 · DOI
  54. Straubinger B, Pech M, Muehlebach K, Jaenichen H-R, Bauer H-G, Zachau HG (1984) Molecular footprints of human immunoglobulin gene evolution: a new sequence family. Nucleic Acids Res 12:5265?5275 · DOI
  55. Sun L, Paulson KE, Schmid CW, Kadyk L, Leinwand L (1984) Non-Alu family interspersed repeats in human DNA and their transcriptional activity. Nucleic Acids Res 12:2669?2690 · DOI
  56. Vissel B, Choo KH (1987) Human alpha satellite DNA?consensus sequence and conserved regions. Nucleic Acids Res 15:6751?6752 · DOI
  57. Wolin SA, Steitz JA (1983) Genes for two small cytoplasmic Ro RNAs are adjacent and appear to be single-copy in the human genome. Cell 32:735?744 · DOI
  58. Wu J, Grindlay GJ, Bushel P, Mendelsohn L, Allan M (1990) Negative regulation of the human epsilon-globin gene by transcriptional interference: role for an Alu repetitive element. Mol Cell Biol 10:1209?1216 · DOI
  59. Yoshitake S, Schach BG, Foster DC, Davie EW, Kurachi K (1985) Nucleotide sequence of the gene for human factor IX (antihemophili factor B). Biochemistry 24:3736?3750 · DOI
  60. Zhou Y-Z, Slagle BL, Donehower LA, VanTuinen P, Ledbetter DH, Butel JS (1988) Structural analysis of a hepatitis B virus genome integrated into chromosome 17p of a human hepatocellular carcinoma. J Virol 62:4224?4231 · DOI
  61. Zucchi I, Schlessinger D (1992) Distribution of moderately repetitive sequences pTR5 and LFl in Xg24-q28 human DNA and their use in assembling YAC contigs. Genomics 12:264?275 · DOI

Cited by

Metadata

Authors
Jurka, J., Walichiewicz, J., & Milosavljevic, A.
Venue
Journal of Molecular Evolution
Publisher
Springer Science and Business Media LLC
Published
1992-10
Volume
35
Issue
4
Pages
286-291
ISSN
  • 0022-2844
  • 1432-1432
DOI
10.1007/bf00161166
Cited by
108
References
0
Language
en
Licence
www.springer.com/tdm (tdm)

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review

Data sources

Bibliographic data: Semantic Scholar, OpenAlex, Crossref.

Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).

Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.