Dmel\gypsy4

General Information
Symbol	Dmel\gypsy4	Species	D.melanogaster
Name	gypsy4	FlyBase ID	FBte0000688
Feature type	natural transposable element
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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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.
Sequences & Components
Complete element (bp)	6852 (Kaminker et al., 2002)
Terminal repeat (bp)
Reference sequence	transposon_sequence_set.embl.txt.gz
Component genes
Sequence Accessions
	DDBJ/EMBL/GenBank
Sequence Ontology (SO)
Transposon type	LTR_retrotransposon (Kaminker et al., 2002, Kapitonov and Jurka, 1997-, Mugnier et al., 2008) transposable_element (Kaminker et al., 2002, Kapitonov and Jurka, 1997-, Mugnier et al., 2008)
Insertions & Copy Number
Copy number and comments	2 in euchromatin of Release 3 genome annotation, of which 1 is full length. (Kaminker et al., 2002)
Search for	All insertions of this transposon Insertions in the sequenced genome Insertions in other genomes
Target Site Duplication
Size (bp)
Orthologs
Curated drosophilid orthologs
Comments

Other Information
Etymology

External Crossreferences
Sequence Crossreferences
	DDBJ/EMBL/GenBank
Other Crossreferences

Synonyms & Secondary IDs ( 3 )
Reported As
Symbol Synonym	Gypsy (Rozhkov et al., 2010) gypsy4 (FlyBase, 1992-, Ganko et al., 2006, Pane et al., 2011, Minervini et al., 2007, Smith et al., 2007, Brennecke et al., 2007, Mugnier et al., 2008, Brennecke et al., 2008, Kawamura et al., 2008, Malone et al., 2009, Li et al., 2009) GYPSY4_I (Gunawardane et al., 2007)
Name Synonym	gypsy4 (Mugnier et al., 2008)
Secondary FlyBase IDs
	FBgn0063433 FBtp0017061
References ( 19 )
Research paper	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] Marques et al., 2010, Nat. Struct. Mol. Biol. 17(1): 24--30 Loqs and R2D2 act sequentially in the siRNA pathway in Drosophila. [FBrf0209625] Nagao et al., 2010, RNA 16(12): 2503--2515 Biogenesis pathways of piRNAs loaded onto AGO3 in the Drosophila testis. [FBrf0212366] Rozhkov et al., 2010, RNA 16(8): 1634--1645 Small RNA-based silencing strategies for transposons in the process of invading Drosophila species. [FBrf0211292] Li et al., 2009, Cell 137(3): 509--521 Collapse of germline piRNAs in the absence of Argonaute3 reveals somatic piRNAs in flies. [FBrf0208736] Malone et al., 2009, Cell 137(3): 522--535 Specialized piRNA pathways act in germline and somatic tissues of the Drosophila ovary. [FBrf0208016] Brennecke et al., 2008, Science 322(5906): 1387--1392 An epigenetic role for maternally inherited piRNAs in transposon silencing. [FBrf0206357] Kawamura et al., 2008, Nature 453(7196): 793--797 Drosophila endogenous small RNAs bind to Argonaute 2 in somatic cells. [FBrf0205455] Mugnier et al., 2008, Gene 411(1-2): 87--93 The heterochromatic copies of the LTR retrotransposons as a record of the genomic events that have shaped the Drosophila melanogaster genome. [FBrf0203032] Brennecke et al., 2007, Cell 128(6): 1089--1103 Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila. [FBrf0200494] Minervini et al., 2007, Gene 393(1-2): 1--10 Heterochromatin protein 1 interacts with 5'UTR of transposable element ZAM in a sequence-specific fashion. [FBrf0200033] Smith et al., 2007, Science 316(5831): 1586--1591 The Release 5.1 annotation of Drosophila melanogaster heterochromatin. [FBrf0216199] Ganko et al., 2006, J. Mol. Evol. 62(1): 111--120 LTR retrotransposon-gene associations in Drosophila melanogaster. [FBrf0191111] Kapitonov and Jurka, 2003, Proc. Natl. Acad. Sci. U.S.A. 100(11): 6569--6574 Molecular paleontology of transposable elements in the Drosophila melanogaster genome. [FBrf0160656] Kaminker et al., 2002, Genome Biol. 3(12): RESEARCH0084 The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective. [FBrf0155828]
Supplementary material	Gunawardane et al., 2007, Supporting online material. Supporting online material. [FBrf0200143]
Personal communication to FlyBase	Ashburner, 2002.8.15, te updates. te updates. [FBrf0151627] Kapitonov and Jurka, 1997-, A reference collection of Drosophila repetitive sequences. (Computer file) A reference collection of Drosophila repetitive sequences. (Computer file) [FBrf0151607]
FlyBase analysis	FlyBase, 1992-, FlyBase curation. FlyBase curation. [FBrf0105495]