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).
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:
|DU or DUT=dUTPase
|TAV or IBMP=transactivator/viroplasmin or inclusion body matrix protein
|PBS=primer binding site
|ATF=aphid transmission factor
|VAP=virion associated protein