Composite retroelement: (SINE-R + VNTR + Alu), SVA_C subfamily
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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 2000bp. The 3' end is formed by a portion of a HERVK LTR (the SINE-R feature) .
A novel human nonviral retroposon derived from an endogenous retrovirus.
Ono M, Kawakami M, Takezawa T;
Nucleic Acids Res 1987;15:8725-8737 Pubmed
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
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
Number of matches to this model that meet the "Gathering" threshold and more stringent "Trusted" threshold. For each threshold, two numbers are shown: (1) the number of matches to this model after removing redundant hits to other models ("non-redundant"), and (2) the total number of matches above threshold, including those with better scoring matches to other models ("all hits").
The model is 1384 positions long. The average length of non-redundant hits to the model is 239.7. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : SVA_C [Requires Repbase registration]