Element:Olco1

Description Olco1, a Ty1/Copia-like LTR retrotransposon, is associated to the family of GalEa-like elements and has been described in the genome of the Japanese medaka fish (Oryzias latipes) (Terrat et al. 2008). Olco1 belongs to GalEA clade a Ty1/Copia lineage specifically found in marin animals (Terrat et al. 2008). The genome of Olco1, of 4760 bp in size, includes LTRs of 187 bp long bounding an internal region that contains a Primer Binding Site (PBS) complementary to a tRNAMet, a single large Open Reading Frame (ORF) (which harbors a stop codon and a frameshift) and a Polypurine Tract (PPT) upstream its 3’LTR. The ORF displays the typical gag and pol polyprotein domains of Ty1/Copia LTR retrotransposons: gag, protease, integrase, reverse transcriptase and RNase H (Terrat et al. 2008). Structure 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 Mobile DNA II. (Craig et al. 2002)

Genbank accession: 154726954 Clade: GalEA Cluster or genus: Undetermined Branch or class: Branch 1 Family: Ty1/Copia System: LTR retroelements Host: Explore the Tree Life Project Oryzias latipes Courtesy of Prof. Shinichi Morishita, University of Tokyo Browse all elements