Element:G-Rhodo

From The Gypsy Database

Description

G-Rhodo (Gypsy Rhodomonas) is a LTR retrotransposon characterized in the cryptomonad algae Rhodomonas salina (Khan et al. 2007). G-Rhodo belongs to the Chromoviridae branch, term suggested (Marín and Lloréns 2000) to describe the Ty3/Gypsy elements bearing chromodomain-integrases (Malik and Eickbush 1999). The chromovirus branch has been disclosed to be the most ancient phylogenetic pattern of Ty3/Gypsy retroelements (Gorinsek, Gubensek and Kordis 2004; 2005; Kordis 2005).

The genomic structure of G-Rhodo is 8.7 Kb in size, including LTRs of 791-787 nt in size. The internal region displays a Primer Binding Site (PBS), two ORFs encoding for the typical gag and pol polyproteins of Ty3/Gypsy chromoviruses (including a chrodomomain at the C-terminus of the pol integrase domain) and a Polypurine Tract (PPT) adjacent to the 3´LTR (Khan et al. 2007).

Structure

G-rhodo.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:114386440
Clade:G-Rhodo
Cluster or genus:Plants
Branch or class:Chromoviruses
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Rhodomonas.jpg
Rhodomonas salina
Courtesy of the "Micro*scope" the Biodiversity of microbes web site
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