X1_LR (DF0001150)

Repetitive element conserved in all mammals, unknown type

Description

Very low copy number in human. Inspection of the 100 vertebrate genome alignment suggests that most of these copies are conserved in mammals. Evidence for this being a TE is a borderline translated BLAST hit to a Ty3/Gypsy-like retroelement from frog (XP_004916550.1) using a consensus derived from the seed alignment. This could represent an ancient exaptation event, or this might be a false positive match between a retroelement POL gene and a functional noncoding element in mammalian genomes.

References

  1. Distinct groups of repetitive families preserved in mammals correspond to different periods of regulatory innovations in vertebrates.
    Jurka J, Bao W, Kojima KK, Kohany O, Yurka MG;
    Biol Direct 2012;7:36-36. Pubmed

Classification

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

Hit Statistics

The model is 162 positions long. The average length of non-redundant hits to the model is 140.8. This table shows the number of hits above score thresholds:

Species Gathering Trusted
non-redundant all hits non-redundant all hits
Mus musculus 10 10 9 9
Homo sapiens 16 16 14 14

External Database Links

  • Repbase : X1_LR [Requires Repbase registration]