Autonomous Kolobok transposon from zebrafish
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Kolobok-1_DR is a consensus sequence of a family of autonomous Kolobok transposons that were active in the zebrafish genome in the last few million years. The Kolobok-1_DR transposon is characterized by 15-bp imperfect terminal inverted repeats, TTAA target site duplications, and it encodes two proteins: (i) the 699-aa transposase, Kolobok-1_DR1p, composed of the THAP DNA-binding domain and catalytic "DDE" domain, which is conserved in all Kolobok transposases, and (ii) the 155-aa Kolobok-1_DR2p protein. The second protein is conserved in highly diverse Kolobok transposons present in the genomes of vertebrates (frog, fish), chordates (lancelet, sea urchin, sea squirt), and cnidarians (starlet sea anemone). See also comments in Kolobok-1_XT.
|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 6303 positions long. The average length of non-redundant hits to the model is 1321.5. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : Kolobok-1_DR [Requires Repbase registration]