FlyBase Natural Transposon Report: Dmel\Rt1a

General Information

Symbol

Rt1a

Species

D. melanogaster

Feature type

natural_transposable_element

FlyBase ID

FBte0000457

Sequences and Components

Complete element (bp)

5180

(Busseau, 2000.10.18)

5108

(Kaminker et al., 2002)

Terminal repeat (bp)

Reference sequence

transposon_sequence_set.fa.gz transposon_sequence_set.gff.gz

Component genes

Rt1a\pol

Rt1a\gag

Sequence Accessions

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

Sequence Ontology (SO)

Transposon type

non_LTR_retrotransposon

(Lipatov et al., 2005, Kaminker et al., 2002, Busseau, 2000.10.18, Tuschl, 2000.7.12)

Insertions and Copy Number

Copy number and comments

13 in euchromatin of Release 3 genome annotation, of which 5 are full length.

(Kaminker et al., 2002)

Search for

Target Site Duplication

Size (bp)

Orthologs

Curated drosophilid orthologs

Comments

Rt1a elements are often inserted within or very close to (CA)_n arrays.

(Busseau et al., 2001)

Other Information

Etymology

External Crossreferences and Linkouts ( 7 )

Crossreferences

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

Synonyms and Secondary IDs (11)

Reported As

Symbol Synonym

DMRT1A

(Olivieri et al., 2012, Gunawardane et al., 2007, Kapitonov and Jurka, 2003, Kaminker, 2001.11.26)

Pilger

(Rizzon et al., 2002, Yan et al., 2002, Kaminker, 2001.11.26)

RT1A

(Saint-Leandre et al., 2020, Sytnikova et al., 2014, Malone et al., 2009, Brennecke et al., 2008)

RT1a

(Ohtani et al., 2013)

Rt1

(Miyao and Yamanouchi, 2022, Petrov et al., 2011)

Rt1A

(Czech et al., 2013)

TE Rt1a

(Kearney et al., 2004)

Waldo-B

(Berezikov et al., 2001, Busseau et al., 2001, Berezikov et al., 2000, Busseau, 2000.10.18)

WaldoB

(Rizzon et al., 2002, Kaminker, 2001.11.26)

pilger

(Gunawardane et al., 2007, Saito et al., 2006, Tuschl, 2000.7.12)

Secondary FlyBase IDs

FBgn0042679
FBgn0041728
FBtp0017045

References (57)

Report Sections

Open Close