Element:Araco

From The Gypsy Database

Description

Araco (Arabidopsis Copia element) is an Oryco-like Ty1/Copia LTR retrotransposon described from database screenings in the genome of Arabidopsis thaliana (Llorens et al. 2009). The genome of this element is about 4.8 Kb in size (4858 bp long) including a 438-bp 5’LTR and a 442-bp 3’LTR. The internal region displays a single long ORF that codes for a gag-pol polyprotein with the typical structure of Ty1/Copia associated domains (gag, protease, integrase, reverse transcriptase and RNase H).

Structure

Araco.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:12321377 (nuc 14472-19329)
Clade:Oryco
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty1/Copia
System:LTR retroelements
Host:
Explore the Tree Life Project
Arabidopsis thaliana.gif
Arabidopsis thaliana
Photo: www.knoch1.de
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