Gypsy-21-I_DR (DF0003043)

Internal sequence of a Gypsy LTR retrotransposon from zebrafish


Flanked by Gypsy-21-LTR_DR. 4-bp target site duplications. The consensus sequence was reconstructed based on multiple alignment of five proviral copies (they are less than 1% divergent from the consensus sequence). The internal portion contains two ORFs encoding a 562-aa gag protein (pos. 86-1771) and a 1585-aa pol protein (pos. 1672-6426) composed of protease, reverse transcriptase, and integrase domains. The second protein, including the protease domain, does not start from Met. Presumably, the gag-pol fusion protein is formed originally due to a ribosomal frame shift.


Accession Name Wikipedia
Type Retrotransposon Article
Class LTR Article
Superfamily Gypsy Article

Hit Statistics

The model is 6426 positions long. The average length of non-redundant hits to the model is 4388.4. This table shows the number of hits above score thresholds:

Species Gathering Trusted
non-redundant all hits non-redundant all hits
Danio rerio 11 1593 11 1100

External Database Links