JOCKEY2 is a non-LTR retrotransposon
A brief description of the entry. Suggestions for modification to this description can be submitted using the adjacent pencil icon.
JOCKEY2 belongs to the JOCKEY clad of non-LTR retrotransposons. Its copies have 3' poly(A) tail and they are flanked by ~10-bp direct repeats generated upon integration into genome. JOCKEY2 forms a separate family of retrotransposons that were active in the ancestral form of the D. melanogaster genome ~5 Myr ago. The 5'-portion of JOCKEY2 cannot be reconstructed completely from the current sequence data. The consensus sequence contains several deletion (~200-bp at position 250, ~900-bp at position 307, and ~370-bp at position 1365). The JOCKEY2 ORF1 and ORF2, which encode the Jockey-like gag and pol proteins, are corrupted by mutations. ORF2 is defined by positions 879-3221.
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 3428 positions long. The average length of non-redundant hits to the model is 321.7. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : JOCKEY2 [Requires Repbase registration]