Element:Tnt-1

From The Gypsy Database

Description

Tnt1 was the first Ty1/Copia transposable element found in Nicotiana tabacum (Grandbastien et al. 1989). Tnt-1 belongs to the Tork clade within Branch 2 of the Ty1/Copia family (Llorens et al. 2009). Its genome is 5334 bp in size and includes two 610-bp LTRs flanking an internal region that contains a Primer Binding Site (PBS), a single Open Reading Frame (ORF) of 1328 amino acids and a final Polypurine Tract (PPT) (Grandbastien et al. 1989). The ORF shows the typical gag and pol protein domains of Ty1/Copia LTR retrotransposons: gag, protease, integrase, reverse transcriptase and ribonuclease H.

Structure

Tnt-1.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:20044
Clade:Tork
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty1/Copia
System:LTR retroelements
Host:
Explore the Tree Life Project
Nicotiana tabacum.jpg
Nicotiana tabacum
Courtesy of the New York Botanical Garden
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