Element:DRM

From The Gypsy Database

Description

Danio rerio Mag element (DRM) is a Ty3/Gypsy LTR retrotransposon described in the genome of the Zebrafish Danio rerio (Llorens et al 2009). DRM belongs, along with other LTR retrotransposons, to Mag a large Ty3/Gypsy cluster widely distributed in both protostomes and deuterostomes (for more details, see Malik and Eickbush 1999; Volff et al. 2001; Tubio, Naveira and Costas 2004). The genomic structure of DRM is 4.8 Kb in size including LTRs of 0.164 kb. The internal region of this element displays a Primer Binding Site (PBS), a single Open Reading Frame (ORF) that codes for a single gag-pol polyprotein, and a Polypurine Tract (PPT) adjacent to the 3´LTR.

Structure

DRM.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:46848209
Clade:A-clade
Cluster or genus:Mag
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Danio rerio.jpg
Danio rerio
Image, courtesy of Wikipedia
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.