Internal sequence of a Gypsy LTR retrotransposon from zebrafish
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Flanked by sometimes 100% identical LTRs (Gypsy13-LTR_DR). 4-bp target site duplications. The internal portion encodes two proteins: a 556-aa gag protein (pos. 95-1755) and 1577-aa polyprotein (pos. 1756-6486, conceptual translation) composed of protease, reverse transcriptase, and integrase domains. PBS is identical to that in Gypsy9_DR. PBS is complementary Arg-tRNA.
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 6488 positions long. The average length of non-redundant hits to the model is 2590.2. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : Gypsy13-I_DR [Requires Repbase registration]