Element:Nomad

From The Gypsy Database

Description

Nomad is a retrovirus characterized in Drosophila melanogaster (Whalen and Grigliatti 1998) and belongs to the genus Errantiviridae (Boeke et al. 1999; Pringle 1998; 1999; Hull 1999), a lineage of fly-retroviruses and LTR retrotransposons phylogenetically related to 412/mdg1 clade (Tubio, Naveira and Costas 2005). The genomic structure of Nomad is 7.6 Kb in size including LTRs of 0.5 Kb. The internal region displays a Primer Binding Site complementary to a tRNALys, three Open Reading Frames (ORFs) for gag, pol, and env genes, and a Polypurine Tract (PPT) adjacent to the 3´LTR, The host-DNA "TANA" sequence, appears to be duplicated in each terminal end of Nomad, and seems to be the main insertion target of this element (Whalen and Grigliatti 1998).

Structure

Nomad.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:AF039416
Clade:Gypsy
Cluster or genus:Errantiviridae
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.