SVA_E (DF0001071)

Composite retroelement: (SINE-R + VNTR + Alu), SVA_E subfamily

Description

SVA retroelements are hominid-specific chimeras, some of which are still active in the human population. These SINEs are a unique combination of features. The 5' end begins with hexamer repeats, followed by two Alus in reverse orientation. The center is comprised of a number of VNTR regions (Variable Number of Tandem Repeats) that may span a few hundred basepairs, up to 2Kbp. The 3' end is formed by a portion of a HERVK LTR (the SINE-R feature). SVA_E is still highly polymorphic in the human population [3].

References

  1. A novel human nonviral retroposon derived from an endogenous retrovirus.
    Ono M, Kawakami M, Takezawa T;
    Nucleic Acids Res 1987;15:8725-8737 Pubmed

  2. Structure and genetics of the partially duplicated gene RP located immediately upstream of the complement C4A and the C4B genes in the HLA class III region. Molecular cloning, exon-intron structure, composite retroposon, and breakpoint of gene duplicat
    Shen L, Wu LC, Sanlioglu S, Chen R, Mendoza AR, Dangel AW, Carroll MC, Zipf WB, Yu CY;
    J Biol Chem 1994;269:8466-8476 Pubmed

  3. SVA elements: a hominid-specific retroposon family.
    Wang H, Xing J, Grover D, Hedges DJ, Han K, Walker JA, Batzer MA;
    J Mol Biol 2005;354:994-1007 Pubmed

Classification

Accession Name Wikipedia
Type Retrotransposon Article
Class Undefined
Superfamily Undefined

Hit Statistics

The model is 1382 positions long. The average length of non-redundant hits to the model is 254.8. This table shows the number of hits above score thresholds:

Species Gathering Trusted
non-redundant all hits non-redundant all hits
Homo sapiens 19839 1537873 19526 1303090

External Database Links

  • Repbase : SVA_E [Requires Repbase registration]