FB2025_01 , released February 20, 2025
Natural Transposon: Dmel\opus
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General Information
Symbol
opus
Species
D. melanogaster
Feature type
natural_transposable_element
FlyBase ID
FBte0000918
Sequences and Components
Complete element (bp)

8kb

7528

(Whalen and Grigliatti, 1998)

7521

(Kaminker et al., 2002)
Terminal repeat (bp)

519

(Whalen and Grigliatti, 1998)
Reference sequence
transposon_sequence_set.fa.gz   transposon_sequence_set.gff.gz
Component genes
opus\pol
opus\gag
opus\env
Sequence Accessions
GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
Sequence Ontology (SO)
Insertions and Copy Number
Copy number and comments

10-15

(Whalen and Grigliatti, 1998)

24 in euchromatin of Release 3 genome annotation, of which 16 are full length.

(Kaminker et al., 2002)

TE copies retrieved from release 5.1 of the D. melanogaster genome.:25

(Lerat et al., 2011)
Search for
Target Site Duplication
Size (bp)

6

4

(Linheiro and Bergman, 2012, Whalen and Grigliatti, 1998)
Orthologs
Curated drosophilid orthologs
Dsim\opus
Comments

An insertion of P{SUPor-P} into a opus has been identified by virtue of decreasing transmission of Dp(1;f)J21A to offspring to 20%.

(Dobie et al., 2001)

opus is a retrovirus-like transposable element that is closely related to gypsy.

(Whalen and Grigliatti, 1998)

Cloned as a consequence of its expression in the terminal filament cells of ovarioles.

(Couderc et al., 1996)

Estimating the genomic numbers of transposable elements demonstrates many families of element are over-represented in heterochromatin.

(Charlesworth et al., 1994)

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)

Element copy numbers on inversion and standard chromosomes has been determined. The copy number is significantly higher within low frequency inversions than within the corresponding standard chromosome regions.

(Sniegowski and Charlesworth, 1994)

First identified as insertion associated with the mutation fa. This is a copia-like element. The map and sequences from the ends of the LTRs were reported by Kidd and Young (1986). The only element studied so far was flanked by the sequence TATATA. This is probably the target site duplication, although it could be part of the inverted repeats at the ends of the LTRs. Restriction map in Lindsley, Zimm, 1992: 1104. yoyo first recognised by a match between an STS sequence and the C.capitata yoyo element; subsequently an apparently complete element was found on Berkeley P1 clone DS01219.

Other Information
Etymology
External Crossreferences and Linkouts ( 16 )
Crossreferences
GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
Synonyms and Secondary IDs (24)
Reported As
Symbol Synonym
2212
(Carr et al., 2002)
BEST:LD06340
BcDNA:LD21171
BcDNA:RH54175
DmeNomV
(Pelisson et al., 2002, Terzian et al., 2001)
EG:EG0005.1
(Benos, 1999.1.20)
ESTS:53B6S
GS2007
(Seong et al., 2001)
HDC10761
LB27
(Couderc et al., 1996, Sahut-Barnola, 1995)
LD06340
(Toba et al., 1999)
NOMAD
(Saint-Leandre et al., 2020, Le Thomas et al., 2013)
Nomad
(Chang et al., 2019, Sytnikova et al., 2014, Kapitonov and Jurka, 2003, Marin and Llorens, 2000)
Nomad/yoyo
(Rizzon et al., 2002)
OPUS
(Rigal et al., 2022)
Opus
(Scarpa et al., 2024, Wang and Elgin, 2011)
YOYO
(Yan et al., 2002)
nomad
(Fort-Aznar et al., 2020, Théron et al., 2018, Nefedova and Kim, 2017, Basquin et al., 2014, Czech et al., 2013, Lerat et al., 2011, Nefedova et al., 2011, Malone et al., 2009, Watanabe et al., 2009, Brennecke et al., 2008, Jackson Behan et al., 2005, Lerat et al., 2003, Lerat et al., 2002, Bowen and McDonald, 2001, Marsano et al., 2000, Ashburner et al., 1999, Whalen and Grigliatti, 1998, Kapitonov and Jurka, 1997-, Whalen, 1997.12.20, FlyBase, 1996-)
nomad virus
(Terzian et al., 2001)
nomad-opus
(Mugnier et al., 2008)
opus
(Wierzbicki et al., 2023, Shaposhnikov et al., 2022, Huang et al., 2021, Théron et al., 2018, Karam et al., 2017, Kofler et al., 2015, Molla-Herman et al., 2015, Senti et al., 2015, Huang et al., 2014, Thomae et al., 2013, Kofler et al., 2012, Linheiro and Bergman, 2012, Sienski et al., 2012, Lerat et al., 2011, Méndez-Lago et al., 2011, Nefedova et al., 2011, Pane et al., 2011, Petrov et al., 2011, Lu and Clark, 2010, Specchia et al., 2010, Deloger et al., 2009, Henikoff et al., 2009, Li et al., 2009, Ghildiyal et al., 2008, Kawamura et al., 2008, Bergman and Bensasson, 2007, Brennecke et al., 2007, Gunawardane et al., 2007, Nefedova and Kim, 2007, Smith et al., 2007, Bergman et al., 2006, Ganko et al., 2006, Saito et al., 2006, Lipatov et al., 2005, Mito et al., 2005)
opus element
yoyo
(Dorfman et al., 2002, Peter et al., 2002, Peter et al., 2002, Benos et al., 2001, Dobie et al., 2001, Canizares et al., 2000, Reese et al., 2000, Reese et al., 2000, Ashburner et al., 1999, Benos, 1999.1.20, Spradling et al., 1999, FlyBase, 1996-)
yoyo element
Secondary FlyBase IDs
  • FBgn0062427
  • FBgn0046782
  • FBgn0026584
  • FBgn0024848
  • FBgn0021759
  • FBgn0015746
  • FBtp0011470
  • FBgn0003007
  • FBtp0011455
References (120)