Repbase Reports

2005, Volume 5, Issue 6
June 30, 2005
Copyright © 2001-2016 - Genetic Information Research Institute
ISSN# 1534-830X
Page 162

SINE2-4_SP

A family of SINE retrotransposons - a consensus sequence.

Submitted:
30-Jun-2005
Accepted:
30-Jun-2005
Key Words:
SINE2; SINE; Interspersed Repeat; Non-autonomous; non-LTR retrotransposon; SINE2-4_SP
Source:
Strongylocentrotus purpuratus
Organism:
Strongylocentrotus purpuratus
Taxonomy:
Eukaryota; Metazoa; Echinodermata; Eleutherozoa; Echinozoa; Echinoidea; Euechinoidea; Echinacea; Echinoida; Strongylocentrotidae; Strongylocentrotus
[2] Authors:
Kapitonov,V.V. and Jurka,J.
Title:
SINE2-4_SP, a family of SINE2 retrotransposons in the sea urchin genome.
Journal:
Repbase Reports 5(6), 162-162 (2005)
Abstract:
The genome harbors ~3000 copies of SINE2-4_SP elements that are >95% identical to the consensus sequence (some elements are 97% identical to the consensus). Given the lack of target site duplications and 3' microsatellites, the non-LTR retrotransposons involved in retrotranspositions of SINE2-4_SP are expected to be members of the CR1 clade. The SINE2-4_SP family is quite old, it includes ~20,000 copies that are 70-90% identical to the consensus. The ~70-bp 5'-terminus of SINE2-4_SP is not significantly similar to known tRNAs. However, it is ~70% identical to the 5' termini of the SINE2-4a, SINE2-4b, SINE4c consensus sequences, which are distantly similar to the tRNA-like terminal parts of SINE1-1_SP, SINE1-2_SP, and SINE1-3_SP. One copy of SINE2-4c was reported previously as SURF1 retrotransposon [1].
Derived:
[2] (Consensus)
Download Sequence - Format:
IG, EMBL, FASTA
References:
  1. Nisson,P.E., Hickey,R.J., Boshar,M.F. and Crain,W.R.
    Identification of a repeated sequence in the genome of the sea urchin which is transcribed by RNA polymerase III and contains the features of a retroposon.
    Nucleic Acids Res 16(4), 1431-1452 (1988)

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