Element:Circe

From The Gypsy Database

Description

Circe is a LTR retrotransposon originally described in the heterochromatic regions of chromosomes III and Y of D. melanogaster, as a tandem organization of defective copies without LTRs (Losada, Abad and Villasante 1997). A later study revealed a sequence accession (AC005427) containing a clone flanked by LTRs, which was used along with two additional accessions (AJ132547 and X98424) to establish a full-length consensus for Circe, which belongs to Osvaldo clade (Malik and Eickbush 1999). The full-length consensus for Circe is 7.4 Kb in size including LTRs of 240 nt. The internal region of this element displays a Primer Binding Site (PBS) for a tRNALys3, three Open Reading Frames (ORFs) for gag, pol, and int genes, and a Polypurine Tract (PPT) adjacent to the 3´LTR (Losada, et al. 1999).

Structure

Circe.png


Figure not to scale. If present, long terminal repeats (LTRs) have been highlighted in blue. Amino acid motifs noted with lines indicate the conserved residues in each protein domain, abbreviations below mean:

MA=matrix PR=protease DU or DUT=dUTPase TM=transmembrane TAV or IBMP=transactivator/viroplasmin or inclusion body matrix protein
CA=capsid RT=reverse transcriptase INT=Integrase CHR=chromodomain
NC=nucleocapsid RH=RNaseH SU=surface MOV=movement protein
PPT=polypurine tract PBS=primer binding site ATF=aphid transmission factor VAP=virion associated protein

Related literature

Genbank accession:AJ132547
X98424
AC005427
Clade:Osvaldo
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Drosophila melanogaster.gif
Drosophila melanogaster
Image, courtesy of Andreas Trepte, Max-Planck Institute for Molecular Genetics
Browse all elements
Jump to: navigation, search


This website use cookies, by continuing to browse the site you are agreeing to our use of cookies. More info about our cookies here.