Element:Tor4a

From The Gypsy Database

Description

Tor4 is a Ty3/Gypsy lineage of putative retroviruses and LTR retrotransposons described with a wide number of copies, together with three other Ty3/Gypsy retroelement clades, in the miniature genome of the tunicate Oikopleura dioica (Volff et al. 2004). The full-length genome of Tor4a (taken as a representative LTR retrotransposon) is 6.8 Kb in size (including two described LTRs with no apparent homology each other). The internal region of this element contains a Primer Binding Site (PBS), coding region and Polypurine Tract (PPT). The coding region displays two ORFs encoding for the gag and pol polyprotein domains typical of LTR retrotransposons (Volff et al. 2004).

Structure

Tor4a.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:49035808
Clade:Tor4
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Oikopleura dioica.jpg
Oikopleura dioica
Wikimedia commons, courtesy of Minami Himemiya
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