L2-1_DR (DF0003524)

Non-LTR retrotransposon from zebrafish

Description

Reclassified to L2 and renamed. The L2-1_DR consensus sequence encodes a gag protein (position 311-1216) and a 1027-aa pol protein (positions 1220-4300), which contains an AP endonuclease (aa positions 72-225) and a reverse transcriptase (aa positions 559-796). The 302-aa gag protein is distantly related to proteins encoded by ORF1 in known L2-like elements from chicken, pufferfish and turtle. The consensus sequence was reconstructed from 10 copies that are ~1% divergent from it. There are 7,000 matches to L2-1_DR in the zebrafish genome, many representing ancestral or otherwise related sequences.

Classification

Accession Name Wikipedia
Type Retrotransposon Article
Class LINE
Superfamily L2

Hit Statistics

The model is 4985 positions long. The average length of non-redundant hits to the model is 802.2. This table shows the number of hits above score thresholds:

Species Gathering Trusted
non-redundant all hits non-redundant all hits
Danio rerio 4285 39068 3883 32178

External Database Links

  • Repbase : L2-1_DR [Requires Repbase registration]