Element:Tse1

From The Gypsy Database

Description

Tse1 is a Ty1/Copia LTR retroelement described in the genome of the hemiascomycetous yeast Kazachstania exigua (syn. Saccharomyces exiguus) (Neuvéglise et al. 2002). It belongs to the Ty (Pseudovirus) clade one of the three original genera on which the in-progrees Pseudoviridae classification is constituted (Boeke et al 2005).

The genome of Tse1 is about of 5.7 Kb in size (5691 bp long), including two 424-bp LTRs (Neuvéglise et al. 2002). The internal region of this element presents a Primer Binding Site (PBS) and two overlapping Open Reading Frames (ORFs). The first ORF displays the gag domains, while the second larger ORF presents the typical Ty1/Copia pol polyprotein structure: protease, integrase, reverse transcriptase and RNase H (Neuvéglise et al. 2002).

Structure

Tse1.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:20152576
Clade:Ty (Pseudovirus)
Cluster or genus:Pseudovirus
Branch or class:Branch 1
Family:Ty1/Copia
System:LTR retroelements
Host:
Explore the Tree Life Project
Saccharomyces exiguus.gif
Kazachstania exigua (Saccharomyces exiguus)
Credit: Joaquin Panadero,
Copyright, GyDB, Biotech Vana
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