Element:Koala

From The Gypsy Database

Description

Koala is one of the several transposable elements described in the genome of the rice species Oryza australiensis (Piegu et al. 2006). This LTR retrotransposon belongs to Retrofit clade within the Branch 2 of the Ty1/Copia family (Llorens et al. 2009). The genome of Koala is 4992 bp in size, including LTRs of 315 nts that flank a single Open Reading Frame ORF. This encodes for both gag and pol polyproteins domains characteristic of Ty1/Copia LTR retrotransposons (Piegu et al. 2006).

Structure

Koala.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:86371681
Clade:Retrofit
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty1/Copia
System:LTR retroelements
Host:
Explore the Tree Life Project
Oryza australiensis.jpg
Oryza australiensis
Image: G.W. Wilson, Australian Tropical Herbarium
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