Element:Batata

From The Gypsy Database

Description

Batata is a Ty1/Copia-like retroelement described in the genome of Ipomoea batatas (sweet potato) belonging to Tork clade (Llorens et al. 2009). The genome of this element is 4248 bp in size and displays a single ORF encoding for both the gag and the pol Ty1/Copia-like polyproteins. Due to the presence of several stop codons the sequence analyzed has been obtained by the assembly of adjacent polyprotein regions (GenBank accession: AY830138). Information about the LTRs of Batata retroelement is not yet available.

Structure

Batata.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:56407676
Clade:Tork
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty1/Copia
System:LTR retroelements
Host:
Explore the Tree Life Project
Ipomoea batatas.jpg
Ipomoea batatas
Image, Laura Covelli,
Copyright, GyDB, Biotech Vana
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