A Database of Drosophila Genes & Genomes

FB2013_03, released May 7th, 2013
 

Dmel\flea

General Information
Symbol Dmel\flea Species D.melanogaster
Name flea element FlyBase ID FBte0000660
Feature type natural transposable element
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Description
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FB2013_03
FB2013_02
All updates Click here to see a list of all updates to this record from FB2010_08 and on.
hide Sequences & Components
Complete element (bp)
4.8kb
 
5034
(Kaminker et al., 2002)
Terminal repeat (bp)
Reference sequence transposon_sequence_set.embl.txt.gz
Component genes
flea\polyprotein
 
hide Sequence Accessions
DDBJ/EMBL/GenBank
 
hide Sequence Ontology (SO)
Transposon type
LTR_retrotransposon
(Kaminker et al., 2002, Mugnier et al., 2008, Lipatov et al., 2005)
transposable_element
(Kaminker et al., 2002, Mugnier et al., 2008)
hide Insertions & Copy Number
Copy number
and comments
17 in euchromatin of Release 3 genome annotation, of which 13 are full length.
(Kaminker et al., 2002)
30
 
Search for
Target Site Duplication
Size (bp)
hide Orthologs
Curated drosophilid orthologs
(Vieira et al., 1999)
 
hide Comments
The spatial and temporal expression patterns of fifteen families of retrotransposons are analysed during embryogenesis and are found to be conserved. Results suggest that all families carry cis-acting elements that control their spatial and temporal expression patterns.
(Ding and Lipshitz, 1994)
Southern blot hybridisation analysis indicates that "Kermit" and flea cross-hybridise at high stringency, suggesting either that their sequences are identical or that they are very closely related.
(Ding and Lipshitz, 1994)
The flea element is a retrotransposon-like element that is found at approximately 20 copies per genome in D.melanogaster. flea encodes a polyprotein containing the sequence motifs for a nucleic acid binding CCHC protein, a proteinase, a reverse transcriptase and an integrase, as is typically found in retroviruses.
(Frommer et al., 1994)
Only one copy of blastopia has been described; it was found within the 87E1-6 region in Canton S but not Oregon R DNA. It has been mapped by Bender (map in Lindsley, Zimm, 1992: 1103). There are no sites for the enzymes BamHI, HindIII, or SalI and there may be additional sites for EcoRI at the ends of the element. flea first described associated with four different fa mutations. The map shown in Lindsley, Zimm, 1992: 1100 is the reverse of that published by Kidd and Young (1986). There are no sites for the enzyme BglII. These are copia-like elements and Kidd and Young have reported sequences from the ends of the LTRs. The elements in the N locus have inserted in target sites within the consensus ATG/GTAT.
 
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hide Etymology
"blastopia" is named owing to its early expression in the blastoderm embryo, and its close relationship to micropia.
(Frommer et al., 1994)
hide External Crossreferences
Sequence Crossreferences
DDBJ/EMBL/GenBank
 
Other Crossreferences
hide Synonyms & Secondary IDs ( 14 )
Reported As
Symbol Synonym
38C.44
(McGill Drosophila Genome Project, 2001.9.25, Butler, 2001, Butler et al., 2001)
BcDNA:SD02026
 
blastopia
(Greil et al., 2003, Kapitonov and Jurka, 2003, Kaminker et al., 2002, Bartolome et al., 2002, Tulin et al., 2002, Rizzon et al., 2002, Bowen and McDonald, 2001, Benos et al., 2001, Marin and Llorens, 2000, Callaerts et al., 1995, Frommer et al., 1994, FlyBase, 1996-, Mugnier et al., 2008, Nefedova et al., 2011, Brennecke et al., 2008, Deloger et al., 2009, Lipatov et al., 2005, Malone et al., 2009)
BLASTOPIA
(Zhou et al., 2009, Olivieri et al., 2012)
Blastopia
(Makunin and Yurlova, 2010, Makunin and Yurlova, 2010, Franchini et al., 2004)
EG:BACR37P7.6
(Benos, 1999.12.13)
EG:EG0007.1
 
flea
(Henikoff et al., 2009, Pane et al., 2011, Petrov et al., 2011, Lemos et al., 2008, Brennecke et al., 2007, Deloger et al., 2009, Bergman and Bensasson, 2007, Kawamura et al., 2008, Li et al., 2009, Klattenhoff et al., 2009, Lu and Clark, 2010, Tan et al., 2012, Sienski et al., 2012)
Flea
(Vieira et al., 2002)
Kermit
(Ding and Lipshitz, 1994, )
Kermit/flea
(FlyBase, 1996-)
Name Synonym
blastopia
(Mugnier et al., 2008, Lipatov et al., 2005)
blastopia element
(van Steensel and Henikoff, 2000)
flea element
 
Kermit element
 
Secondary FlyBase IDs
  • FBgn0000665
  • FBgn0001302
  • FBgn0014947
  • FBgn0045760
  • FBtp0011413
  • FBtp0011427
hide References ( 55 )
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hide Recent research papers ( 6 )
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]
Tan et al., 2012, Hum. Mol. Genet. 21(1): 57--65
Retrotransposon activation contributes to fragile X premutation rCGG-mediated neurodegeneration. [FBrf0216915]
Nefedova et al., 2011, Virus Genes 42(2): 297--306
Integration specificity of LTR-retrotransposons and retroviruses in the Drosophila melanogaster genome. [FBrf0213545]
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]
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