Element:Roo

From The Gypsy Database

Description

Roo is a potential insect retrovirus described in the genome of the dipter Drososphila melanogaster (Kaminker et al. 2002, unpublished data). Roo belongs to the Bel clade (Copeland et al. 2005) within Branch 1 of the Bel/Pao family (Llorens et al. 2009). The genome of this element is 9.1 Kb in size, including LTRs of 429 (5’ LTR) and 428 nts (3’ LTR). The internal region of Roo displays a single ORF encoding for gag, pol and env polyproteins. Interestingly, our analyses suggest that the env protein of Roo is more similar to those envs coded by Ty3/Gypsy errantiviruses than those of the Bel/Pao family. Although this indicate that Roo might be a putative recombinant between a Bel/Pao element and a Ty3/Gypsy retrovirus further evidence is required to clarify if such a feature is also common in other Roo copies.

Structure

Roo.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:27368142
Clade:Bel
Cluster or genus:Undetermined
Branch or class:Branch 1
Family:Bel/Pao
System:LTR retroelements
Host:
Explore the Tree Life Project
Drosophila melanogaster.gif
Drososphila 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.