A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Dmel\F-element

General Information
Symbol Dmel\F-element Species D.melanogaster
Name FlyBase ID FBte0000005
Feature type natural transposable element Created / Updated 2006-12-04/2006-12-04
hide Sequences & Components
Complete element (bp)
4708
(Kaminker et al., 2002)
to 4.8kb
 
Terminal repeat (bp)
Reference sequence transposon_sequence_set.embl.txt.gz
Component genes
F-element\gag-r
 
F-element\RTase
 
hide Sequence Accessions
DDBJ/EMBL/GenBank
 
hide Sequence Ontology (SO)
Transposon type
non_LTR_retrotransposon
(Kaminker et al., 2002, )
transposable_element
(Kaminker et al., 2002, )
hide Insertions & Copy Number
Copy number
and comments
42 in euchromatin of Release 3 genome annotation, of which 16 are full length.
(Kaminker et al., 2002)
50
 
Search for
Target Site Duplication
Size (bp)
8-22
 
hide Orthologs
Curated drosophilid orthologs
 
 
 
 
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
 
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
 
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
(Biemont and Cizeron, 1999)
 
 
 
 
 
 
 
 
 
hide Comments
Sense and antisense transcripts of F-element have been detected at different stages of development.
(Churikov and Kretova, 2003)
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)
F-elements are located in both euchromatin and heterochromatin.
(Terrinoni et al., 1997)
F-element, I-element and Doc basal promoters share the same architecture and functional organisation.
(Minchiotti et al., 1997)
Isolation and characterisation of a member of the F-element family, Fex. Fex is a full-size element of 4,690bp and codes for two complete open reading frames (ORFs). Functional analysis of the 5' region identifies a cis-acting control region within ORF1 that could account for most aspects of the temporal and spatial expression pattern.
(Kerber et al., 1996)
One of a class of genes with TATA-less promoters that have a subset of the conserved DPE sequence.
(Burke and Kadonaga, 1996)
The distribution of transposable elements within heterochromatin indicates that they are major structural components of the heterochromatin.
(Pimpinelli et al., 1995)
Full length transcripts originate from the 'in' promoter, found at the 5' end and originate from the antisense 'out' promoter which transcribes towards the 'in' promoter.
(Minchiotti et al., 1994)
The Fin and Fout promoters are functionally dissected in cell culture assays of templates carrying base substitutions and/or deletions across the +1 to +245 region of element F12. Fin promoter is internal to the transcribed region and consists of a proximal and distal element. Fout is a TATA-less promoter that directs transcription from three nearby sites.
(Contursi et al., 1993)
Protein and RNA analysis of F-element DNA segments fused to Ecol\CAT identifies two promoters that transcribe in opposite orientations, in (oriented inward) and out (oriented outward). The 'in' promoter drives the synthesis of transcripts that initiate around residue +6 and are directed toward the F-element. 'in' transcripts are internal to the transcribed region and probably control the formation of F-element transposition RNA intermediates and gene products. The 'out' promoter drives the synthesis of transcripts that initiate at nearby sites within the +92 to +102 interval. Deletions knocking out the 'in' promoter do not impair 'out' transcription and conversely deletions knocking out the 'out' promoter do not impair 'in' transcription.
(Minchiotti and Di Nocera, 1991)
A cDNA clone, F-id1, is homologous to the F-element and has been isolated from cDNA library prepared from imaginal discs.
(Tino et al., 1990)
F-elements encode an open reading frame (ORF) that encodes a protein exhibiting extensive homology to the reverse transcriptase-like domain of the potential product of the I-element. This observation suggests F-elements and I-elements are closely related and presumably are mobilised within the genome by a similar mechanism.
(di Nocera and Casari, 1987)
First described by Dawid et al. (FBrf0035944) as an element within a copy of the R1-element type I 28S rDNA insertion sequence. The complete base sequence of a 3.5 kilobase element, Fw, has been reported by Di Nocera and Casari (FBrf0047228).
 
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hide Etymology
hide External Crossreferences
Sequence Crossreferences
DDBJ/EMBL/GenBank
 
Other Crossreferences
hide Synonyms & Secondary IDs ( 15 )
Reported As
Symbol Synonym
38C.14
(McGill Drosophila Genome Project, 2001.9.25, Butler, 2001, Butler et al., 2001)
38C.16
(McGill Drosophila Genome Project, 2001.9.25, Butler, 2001, Butler et al., 2001)
38C.17
(McGill Drosophila Genome Project, 2001.9.25, Butler, 2001, Butler et al., 2001)
BcDNA:GM08552
 
DF
(Bavoso et al., 1998)
F
(Fablet et al., 2007)
F14
(Di Nocera, 1996.10.21, Di Nocera, 1996.10.21)
F-element
(Saito et al., 2006, De Lucia et al., 2005, Gunawardane et al., 2007, Smith, 2007, Lemos et al., 2008, Brennecke et al., 2007)
F element
(Haynes et al., 2006)
Fex
(FlyBase, 1996-)
Fw
(Kapitonov and Jurka, 2003, Reese et al., 2000, Cryderman et al., 1999, FlyBase, 1996-)
Fw-element
(Bavoso et al., 1998, Huijser et al., 1988)
Jiminy
(Bender et al., 1983, Scott et al., 1983, FlyBase, 1996-)
jiminy
 
Motu 2
(Sun et al., 2003)
Name Synonym
F element
(Terrinoni et al., 1997, Arkhipova and Ilyin, 1991, Dalby and O'Hare, 1991, di Nocera et al., 1986)
Secondary FlyBase IDs
  • FBgn0061420
  • FBgn0000652
  • FBtp0011425
hide References ( 101 )
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hide Recent research papers ( 5 )
Lemos et al., 2008, Science 319(5859): 91--93
Polymorphic Y chromosomes harbor cryptic variation with manifold functional consequences. [FBrf0200757]
Brennecke et al., 2007, Cell 128(6): 1089--1103
Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila. [FBrf0200494]
Smith, 2007, Science 316(5831): 1586--1591
[FBrf0202564]
Haynes et al., 2006, Curr. Biol. 16(22): 2222--2227
Element 1360 and RNAi components contribute to HP1-dependent silencing of a pericentric reporter. [FBrf0193115]
Saito et al., 2006, Genes Dev. 20(16): 2214--2222
Specific association of Piwi with rasiRNAs derived from retrotransposon and heterochromatic regions in the Drosophila genome. [FBrf0191820]
Show all research papers ...
hide Recent reviews ( 1 )
Fablet et al., 2007, Gene 390(1-2): 84--91
The evolution of retrotransposon regulatory regions and its consequences on the Drosophila melanogaster and Homo sapiens host genomes. [FBrf0194872]
Show all reviews ...