Repbase Reports
2013, Volume 13, Issue 1
January 31, 2013
Copyright © 2001-2024 - Genetic Information Research Institute, California
ISSN# 1534-830X
Page 822

R4-1_CJap

An R4 non-LTR retrotransposon family from Caenorhabditis japonica.

Submitted:
02-Jan-2013 		Accepted:
02-JAN-2013
Key Words:
R4; Non-LTR Retrotransposon; Transposable Element; R4-1_CJap
Source:
Caenorhabditis japonica 		Organism:
Caenorhabditis japonica 		Taxonomy:
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
[] Authors:
Kojima,K.K. and Jurka,J.
Title:
R4, a 28S ribosomal RNA gene-specific non-LTR retrotransposon family from nematodes.
Journal:
Repbase Reports 13(1), 822-822 (2013)
Abstract:
It is followed by TGACGCGCATGA in a 28S rRNA gene. The 5' end is uncertain. The 28S ribosoma RNA gene-specific non-LTR retrotransposon family, R4, has been reported from three species of nematodes (Ascaris lumbricoides, Parascaris equorum, and Haemonchus contortus) [1]. We here characterized non-LTR retrotransposons belonging to the R4 clade from six species of nematodes (Ascaris suum, Caenorhabditis japonica, Bursaphelenchus xylophilus, Heterodera glycines, Meloidogyne incognita and Strongyloides ratti). Among them, R4 elements from five species (A. suum, C. japonica, B. xylophilus, H. glycines and M. incognita) are inserted at the same site as R4 elements from A. lumbricoides and P. equorum (Ascaridida), and H. contortus (Strongylida). C. japonica belongs to Rhabditida, and B. xylophilus, H. glycines and M. incognita belong to Tylenchida. Therefore, R4 elements with the same target specificity are distributed among at least four nematode orders: Ascaridada, Strongylida, Rhabditida and Tylenchida. In contrast, four R4-like elements from S. ratti (Rhabditida) are not inserted at the canonical R4 site. R4-1_SRa is inserted near the R2 insertion site and R4-2_SRa is inserted into a tRNA-Asp gene.
Derived:
Positions 1 5129 Accession No ABLE03011482 EMBL/GenBank/DDBJ
Download Sequence - Format:
IG, EMBL, FASTA
References:
  1. Burke,W.D., M??ller,F. and Eickbush,T.H.
    R4, a non-LTR retrotransposon specific to the large subunit rRNA genes of nematodes.
    Nucleic Acids Res 23(22), 4628-4634 (1995)

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