Non-LTR retrotransposon from zebrafish
A brief description of the entry. Suggestions for modification to this description can be submitted using the adjacent pencil icon.
Re-classified to L2 and renamed. L2-3_DR is a family of L2-like non-LTR retrotransposons and it was active in zebrafish recently. The consensus sequence encodes a 516-aa gag (position 254-1801) and 971-aa pol (positions 1805-4717) protein. The latter is composed of AP endonuclease (aa positions 72-282) and reverse transcriptase (aa positions 543-788). The first is distantly related to proteins encoded by ORF1 in known L2-like elements from chicken, pufferfish and turtle. L2-3_DR copies are less than ~5% divergent from the consensus sequence. There are almost 6,000 matches to L2-3_DR in the zebrafish genome.
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 5068 positions long. The average length of non-redundant hits to the model is 734. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : L2-3_DRe [Requires Repbase registration]