Autonomous IS4EU DNA transposon from zebrafish
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DNA transposons from the IS4EU superfamily are characterized by the TA target site duplications. These transposons are wide spread in metazoans, including fish, frogs, lancelet, sea urchins, sea squirts, insects and cnidarians. Autonomous IS4EU transposons encode two proteins: the IS4EU-TR transposase, which is similar to the IS4-like bacterial transposases, and the ISEU-EX DNA exonuclease. Based on the conservation of both proteins in highly divergent transposons, is is clear that they are necessary for transpositions. IS4EU-1_DR is a consensus sequence of a very young family of autonomous IS4EU transposons that were active in the zebrafish genome in a last few million years. The IS4EU-1_DR transposon is characterized by 11-bp imperfect terminal inverted repeats, TA target site duplications, and it encodes two proteins: (i) the 464-aa transposase, IS4EU-1_DR1p, composed of the THAP DNA-binding domain and catalytic "DDE" domain, which is conserved in all IS4EU transposases, and (ii) the 505-aa IS4EU-1_DR2p exonuclease. Questions and comments send to Vladimir Kapitonov.
|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 5004 positions long. The average length of non-redundant hits to the model is 259.6. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : IS4EU-1_DR [Requires Repbase registration]