Repbase Reports
2002, Volume 2, Issue 11
November 30, 2002
Copyright © 2001-2024 - Genetic Information Research Institute, California
ISSN# 1534-830X
Page 3

DOC6_DM

DOC6_DM is a non-LTR retrotransposon - a consensus.

Submitted:
13-Dec-2002 		Accepted:
13-DEC-2002
Key Words:
Jockey; Non-LTR Retrotransposon; Transposable Element; DOC6_DM; JOCKEY clade; ORF1; ORF2; Strider; endonuclease; reverse transcriptase
Source:
Drosophila melanogaster 		Organism:
Drosophila melanogaster 		Taxonomy:
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Holometabola; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora; melanogaster group; melanogaster subgroup
[] Authors:
Kapitonov,V.V. and Jurka,J.
Title:
DOC6_DM, a family of Jockey-like non-LTR retrotransposons from D. melanogaster.
Journal:
Repbase Reports 2(11), 3-3 (2002)
Abstract:
DOC6_DM belongs to the JOCKEY clade of non-LTR retrotransposons. DOC6_DM is a separate family. Members of this family are over 99% identical to the DOC6_DM consensus sequence. Therefore, this family was active very recently. A portion of DOC6_DM (positions 1482-4089) was described previously as the Strider non-LTR retrotransposon [1-2]. DOC6_DM is less than 70% identical to reported retrotransposons. There are 10 copies of DOC6_DM present in the sequenced portion of the D. melanogaster genome. DOC6_DM encodes the 389-aa DOC6_DM-ORF1p (positions 178-1327) and the 884-aa DOC6_DM-ORF2p (positions 1328-3979) proteins most similar to the ORF1 and ORF2 protein, respectively, encoded by DOC-like non-LTR retrotransposons from the JOCKEY clade. Copies of DOC6_DM are flanked by ~15-bp target site duplications. The 3' poly(A) tails of DOC6_DN elements are formed of the (TTAAA), (TTAA) or (TAAA) microsatellites that follow the 3' AATAAA polyadenylation signal. The tail is not included in the consensus sequence.
Derived:
[3] (Consensus)
Download Sequence - Format:
IG, EMBL, FASTA
References:
  1. Kronmiller,A.B., Svirskas,R., Carlson,J., Patel,P.S., Wan,K., Pacleb,J., Champe,M., Kaminker,J., Rubin,G. et al.
    Drosophila melanogaster transposon strider.
    Unpublished

  2. Kronmiller,A.B., Svirskas,R., Carlson,J., Patel,P.S., Wan,K., Pacleb,J., Champe,M., Kaminker,J., Rubin,G. et al.
    Direct submission to GenBank.
    Direct Submission to Genbank (06-DEC-2001)Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, 1 Cyclotron Rd, Berkeley, CA 94720, USA

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