Element:Sto-4

From The Gypsy Database

Description

Sto-4 is a Ty1/Copia-like LTR retrotransposon described in Zea mays (Marillonnet and Wessler 1998). According to (Llorens et al. 2009), this element belongs to Tork clade within Branch 2 of the Ty1/Copia LTR retrotransposons family.

While the complete sequence of Sto-4 has been estimated to be 7.2 kb long, the analyzed genome corresponds to the partial sequence deposited in the GenBank (Marillonnet and Wessler 1998). It is 6383 bp in size, including LTRs of 117 (5’LTR) and 181 bp (3’LTR) (Marillonnet and Wessler 1998).The internal region contains a Primer Binding Site (PBS) complementary to a tRNAiMet and a final Polypurine Tract (PPT) flanking a single long Open Reading Frame (ORF) of 1406 amino acids displaying the gag and pol domains structured as is typical in Ty1/Copia LTR retrotransposons (Marillonnet and Wessler 1998).

Structure

Sto-4.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:4234851
Clade:Tork
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty1/Copia
System:LTR retroelements
Host:
Explore the Tree Life Project
Zea mays.gif
Zea mays
Image, Carlos Llorens,
Copyright, GyDB, Biotech Vana
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