R2-like non-LTR retrotransposon from zebrafish
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This is a young family of HERO non-LTR retrotransposons. The consensus sequence was built based on multiple alignment of several copies less than 2% divergent from each other.
An active non-LTR retrotransposon with tandem structure in the compact genome of the pufferfish Tetraodon nigroviridis.
Bouneau L, Fischer C, Ozouf-Costaz C, Froschauer A, Jaillon O, Coutanceau JP, Körting C, Weissenbach J, Bernot A, Volff JN;
Genome Res 2003;13:1686-1695. Pubmed
Cross-genome screening of novel sequence-specific non-LTR retrotransposons: various multicopy RNA genes and microsatellites are selected as targets.
Kojima KK, Fujiwara H;
Mol Biol Evol 2004;21:207-217. 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 3388 positions long. The average length of non-redundant hits to the model is 649.1. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : HERODr [Requires Repbase registration]