Internal sequence of a Bikhari LTR retrotransposon from zebrafish
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TSD of this LTR-retrotransposon is 4-bp long. There is an ORF from 2883-4664, which product is labeled Crestin in the nr databases (without predicted function). Bhikhari ORF translation products have an ATPase domain (AA 100-200), resembling the conserved domain SMC as found in COG1196, pfam02463, and COG3264.
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 5912 positions long. The average length of non-redundant hits to the model is 1522.9. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : BHIKHARI-2-I_DR [Requires Repbase registration]