Element:Fourf

From The Gypsy Database

Description

Fourf is a Ty1/Copia LTR retrotransposon described in Zea mays (SanMiguel et al. 1996). It is part of a complex nested structure involving at least nine other mobile genetic elements inserted in another Ty1/Copia LTR retrotransposon -RIRE1, which at the same time is inserted in another genetic element called Prem2-a (Fu et al. 2002). According to Llorens et al. 2009, Fourf belongs to Tork clade within Branch 2 of the Ty1/Copia LTR retrotransposon family. The genome of Fourf is about 7.0 Kb in size, including LTRs of 1.1-1.2 Kb (SanMiguel et al. 1996; Fu et al. 2002). The internal region of this element contains a Primer Binding Site (PBS) complementary to a tRNAiMet, a single long Open Reading Frame (ORF) of 1466 amino acids encoding for the gag and pol domains typical of Ty1/Copia LTR retrotransposons, and a Polypurine Tract (PPT) upstream to the 3´LTR (SanMiguel et al. 1996; Fu et al. 2002).

Structure

Fourf.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:166008041 (nuc 40960-47847)
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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