Non-autonomous Helitron from zebrafish
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Helitron-1N1_DR is a nonautonomous deletion derivate of Helitron-1_DR; that was transposed by the Helitron-1_DR-encoded proteins. The genome contains several hundred copies of Helitrons. Many of them form clusters composed of 2-20 tandemly repeated elements (du to the rolling-circle replication). These elements, like most of Helitrons, are inserted into 5'-A|T-3' target sites without their duplications. They are frequently inserted into (TAA)n microsatellites. The 3' terminal region (pos. 975-987) is complementary to the 5' terminal region (pos. 23-35). Probably, this complementarity induces formation of a circular DNA structure important during the rolling-circle replication. The standard 3' short palindrome is at pos. 955-972. There is also a short 12-bp palindrome at pos. 6-17. Numerous copies of Helitrons-1N1_ZF are <3% divergent from the consensus. Therefore, transposition of this family has occurred quite recently.
Helitrons on a roll: eukaryotic rolling-circle transposons.
Kapitonov VV, Jurka J;
Trends Genet 2007;23:521-529 Pubmed
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 989 positions long. The average length of non-redundant hits to the model is 575.8. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : Helitron-1N1_DR [Requires Repbase registration]