A Database of Drosophila Genes & Genomes

FB2013_03, released May 7th, 2013
 

Dmel\Doc

General Information
Symbol Dmel\Doc Species D.melanogaster
Name Doc element FlyBase ID FBte0000341
Feature type natural transposable element
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Description
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FB2013_03
FB2013_02
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hide Sequences & Components
Complete element (bp)
4725
(Kaminker et al., 2002)
to 5kb
 
Terminal repeat (bp)
Reference sequence transposon_sequence_set.embl.txt.gz
Component genes
Doc\gag
 
Doc\RTase
 
hide Sequence Accessions
DDBJ/EMBL/GenBank
 
hide Sequence Ontology (SO)
Transposon type
non_LTR_retrotransposon
(Kaminker et al., 2002, Dimitri et al., 2003, Yang and Nuzhdin, 2003, Lipatov et al., 2005)
transposable_element
(Kaminker et al., 2002, )
hide Insertions & Copy Number
Copy number
and comments
40
 
55 in euchromatin of Release 3 genome annotation, of which 30 are full length.
(Kaminker et al., 2002)
Search for
Target Site Duplication
Size (bp)
6-13
 
hide Orthologs
Curated drosophilid orthologs
 
 
 
hide Comments
The Doc element is transcribed as a full-length 5kb transcript which encodes two open reading frames (ORFs). Doc\gag (ORF1) encodes an RNA-binding protein and Doc\RTase (ORF2) encodes a reverse transcriptase. The RNA is localised on the Drosophila oocyte cytoskeleton.
(Zhao and Bownes, 1998)
F-element, I-element and Doc basal promoters share the same architecture and functional organisation.
(Minchiotti et al., 1997)
Changes introduced in the promoter regions of distinct LINEs allows transcriptional activators to stimulate cryptic Inr modules. The response of different promoter constructs to the same enhancer is significantly influenced by the number, position and type of core elements present.
(Minchiotti and Di Nocera, 1997)
Correlations between the rate of transposition and TE copy number are determined for Doc and are found to be positive.
(Nuzhdin et al., 1997)
Doc elements are located in both euchromatin and heterochromatin.
(Terrinoni et al., 1997)
One of a class of genes with TATA-less promoters that have the conserved DPE sequence.
(Burke and Kadonaga, 1996)
Distinct cis-acting DNA elements, clustered in a 50bp long DNA region located at the 5' end of unit-length Doc copies, cooperate to control RNA initiation. Sequences located 200bp downstream from the 5' end inhibit expression in a position and orientation-dependent manner. Inhibition appears to be due to reduced translation rather that to impaired synthesis.
(Contursi et al., 1995)
The distribution of transposable elements within heterochromatin indicates that they are major structural components of the heterochromatin.
(Pimpinelli et al., 1995)
Ectopic recombination can occur between two Doc elements.
(Lim and Simmons, 1994)
The Doc retrotransposon has been found unstable in certain stocks.
(Pasyukova and Nuzhdin, 1993)
Closely related to I-element, F-element, G-element and jockey element.
(O'Hare et al., 1991)
There is no sequence homology between the ends of the Doc element. Different Doc elements are conserved at the 3' end (which terminates with a polyadenylation signal followed by a stretch of oligo-A), but may be truncated at the 5' end, suggesting a mechanism of transposition via an RNA intermediate.
(Driver et al., 1989)
Doc elements lie at both break points of the Antp73b inversion; these elements lie in inverted orientation and the inversion probably resulted from recombination between them.
(Schneuwly et al., 1987)
First described as an insertion in the BXC region on a chromosome carrying the Ubxbx-3 mutation, although it is not responsible for the mutant phenotype.
(Bender et al., 1983)
hide Other Information
hide Etymology
hide External Crossreferences
Sequence Crossreferences
DDBJ/EMBL/GenBank
 
Other Crossreferences
hide Synonyms & Secondary IDs ( 11 )
Reported As
Symbol Synonym
Doc
(Zhang et al., 2011, ffrench-Constant et al., 2006, Gunawardane et al., 2007, Pane et al., 2011, Lau et al., 2009, Petrov et al., 2011, Mito et al., 2005, Smith et al., 2007, Brennecke et al., 2007, Lecuyer et al., 2007, Kawamura et al., 2008, Ghildiyal et al., 2008, Deloger et al., 2009, Bergman and Bensasson, 2007, Dimitri et al., 2003, Yang and Nuzhdin, 2003, González et al., 2008, Lipatov et al., 2005, Chambeyron et al., 2008, Li et al., 2009, Iklé et al., 2008, Phalke et al., 2009, Fanti et al., 2003, Lu and Clark, 2010, Bergman et al., 2006, Méndez-Lago et al., 2011, Cooper et al., 2010, Handler et al., 2011, Wang and Elgin, 2011, Sienski et al., 2012, Klenov et al., 2011)
DOC
(Kapitonov and Jurka, 2003, Gunawardane et al., 2007, Czech et al., 2008, Zhou et al., 2009, Olivieri et al., 2012)
doc
(Fablet et al., 2007, Brennecke et al., 2008, Malone et al., 2009, Macpherson et al., 2008)
Doc1053
(Yenerall et al., 2011)
Doc-element
(Sun et al., 2012)
Docmel
(Casacuberta and Pardue, 2003)
EG:80H7.8
 
EG:121E7.1
 
TE Doc
(Kearney et al., 2004)
Name Synonym
Doc
(Lipatov et al., 2005)
doc element
(Mackay et al., 1994)
Doc element
(Cooper et al., 2010)
Secondary FlyBase IDs
  • FBgn0000481
  • FBtp0011424
hide References ( 144 )
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hide Recent research papers ( 12 )
Mou et al., 2012, Proc. Natl. Acad. Sci. U.S.A. 109(8): 2949--2954
Control of target gene specificity during metamorphosis by the steroid response gene E93. [FBrf0217473]
Olivieri et al., 2012, Mol. Cell 47(6): 954--969
The Cochaperone Shutdown Defines a Group of Biogenesis Factors Essential for All piRNA Populations in Drosophila. [FBrf0219572]
Sienski et al., 2012, Cell 151(5): 964--980
Transcriptional silencing of transposons by piwi and maelstrom and its impact on chromatin state and gene expression. [FBrf0220033]
Sun et al., 2012, G3 (Bethesda) 2(5): 551--553
Simplified insertion of transgenes onto balancer chromosomes via Recombinase-Mediated Cassette Exchange. [FBrf0218264]
Handler et al., 2011, EMBO J. 30(19): 3977--3993
A systematic analysis of Drosophila TUDOR domain-containing proteins identifies Vreteno and the Tdrd12 family as essential primary piRNA pathway factors. [FBrf0216344]
Klenov et al., 2011, Proc. Natl. Acad. Sci. U.S.A. 108(46): 18760--18765
Separation of stem cell maintenance and transposon silencing functions of Piwi protein. [FBrf0216776]
Méndez-Lago et al., 2011, Mol. Biol. Evol. 28(7): 1967--1971
A Large Palindrome With Interchromosomal Gene Duplications in the Pericentromeric Region of the D. melanogaster Y Chromosome. [FBrf0214341]
Pane et al., 2011, EMBO J. 30(22): 4601--4615
The Cutoff protein regulates piRNA cluster expression and piRNA production in the Drosophila germline. [FBrf0217070]
Petrov et al., 2011, Mol. Biol. Evol. 28(5): 1633--1644
Population genomics of transposable elements in Drosophila melanogaster. [FBrf0214125]
Wang and Elgin, 2011, Proc. Natl. Acad. Sci. U.S.A. 108(52): 21164--21169
Drosophila Piwi functions downstream of piRNA production mediating a chromatin-based transposon silencing mechanism in female germ line. [FBrf0217081]
Yenerall et al., 2011, BMC Evol. Biol. 11: 364
Mechanisms of intron gain and loss in Drosophila. [FBrf0217682]
Zhang et al., 2011, Mol. Cell 44(4): 572--584
Heterotypic piRNA Ping-Pong Requires Qin, a Protein with Both E3 Ligase and Tudor Domains. [FBrf0216809]
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