Non-LTR retrotransposon from zebrafish
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Reclassified to L2 and renamed. L2-2_DR is a family of L2-like non-LTR retrotransposons and it was active in zebrafish recently. The consensus sequence was reconstructed based on 10 copies that are ~2% divergent from it. Over 7,000 matchtes to L2-2_DR are reported in the zebrafish genome. The consensus sequence encodes only a pol protein (position 1111-4005). A 5'-terminal 1110-bp non-coding is present in L2-2_DR instead of an L2-like ORF1. The 965-aa pol protein is composed of AP endonuclease and reverse transcriptase domains. Endonuclease/reverse transcriptase proteins encoded by L2-2_DR-like elements were probably involved in proliferation of SINE_DR1. L2-2_DR and SINE_DR1 share nearly identical 60-bp 3' tails.
SINEs and LINEs share common 3' sequences: a review.
Okada N, Hamada M, Ogiwara I, Ohshima K;
Gene 1997;205:229-243. 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 4238 positions long. The average length of non-redundant hits to the model is 694.1. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : L2-2_DRe [Requires Repbase registration]