Repbase Reports
2008, Volume 8, Issue 4
April 30, 2008
Copyright © 2001-2016 - Genetic Information Research Institute
ISSN# 1534-830X
Page 514

Troyka-2-I_BF

Internal portion of the amphioxus Troyka-2_BF autonomous LTR retrotransposon - a conceptual consensus.

Submitted:
29-Apr-2008 		Accepted:
30-Apr-2008
Key Words:
Gypsy; LTR Retrotransposon; Transposable Element; Troyka-2-I_BF; Troyka-2-LTR_BF; Troyka-2_BF
Source:
Branchiostoma 		Organism:
Branchiostoma 		Taxonomy:
Eukaryota; Metazoa; Chordata; Cephalochordata; Branchiostomidae
[2] Authors:
Kapitonov,V.V. and Jurka,J.
Title:
Troyka - a distinctive group of gypsy-like LTR retrotransposons inducing 3-bp target-site duplications.
Journal:
Repbase Reports 8(4), 514-514 (2008)
Abstract:
Troyka is a distinctive group of gypsy LTR retrotransposons. Troyka retrotransposons differ from canonical gypsy and other LTR retrotransposons by the length of target site duplications (3-bp in Troyka) and by the unusual 5'-CG and CG-3' termini of LTRs. The ~1600-aa polyprotein encoded by Troyka elements is composed of the aspartyl protease, reverse transcriptase, and integrase domains. The polyproteins encoded by different families of Troyka present in the cnidarian and amphioxus genomes are ~50% identical to each other. However, there proteins are only 20-30% identical to the pro, RT and INT domains encoded by canonical gypsy LTR retrotransposons. Troyka-2_BF is a very young family of Troyka LTR retrotransposons present in the amphioxus genome. Some copies of Troyka-1_BF are flanked by 99% identical LTRs. The internal portion is not completely reconstructed.
Derived:
[2] (Consensus)
Download Sequence - Format:
IG, EMBL, FASTA
References:
  1. Putnam,N.H., Srivastava,M., Hellsten,U., Dirks,B., Chapman,J., Salamov,A., Terry,A., Shapiro,H., Lindquist,E., Kapitonov,V.V., Jurka,J., Genikhovich,G., Grigoriev,I.V., Lucas,S.M., Steele,R.E., Finnerty,J.R., Technau,U., Martindale,M.Q. and Rokhsar,D.S.
    Sea anemone genome reveals ancestral eumetazoan gene repertoire and genomic organization.
    Science 317(5834), 86-94 (2007)

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