Autonomous Harbinger DNA transposon from zebrafish
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HARBINGER2_DR is an autonomous Harbinger-like DNA transposon. It is characterized by 13-bp TIRs and the CAG target site duplication. The zebrafish genome harbors ~100 HARBINGER2N_DR nonautonomous elements derived from HARBINGER2_DR. The HARBINGER2N_DR consensus sequence is nearly identical to HARBINGER2_DR (only 4 indels, it matches positions 1-603 and 3311-3727). HARBINGER2_DR encodes two proteins, the 276-aa HARBINGER2_DR-1p (2 exons, positions 642-1437 and 1558-1592) and the 368-aa HARBINGER2_DR-2p transposase (positions 2140-3246). HARBINGER2_DR-1p is similar to Myb-like proteins present in different eukaryotes.
|Class||Cut and Paste|
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 3727 positions long. The average length of non-redundant hits to the model is 348.7. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : HARBINGER2_DR [Requires Repbase registration]