Element:TSI-9

Description TSI-9 is one of the several transposable elements described in the genome of the foxtail millet (Setaria italica ssp.) (Kawase et al. 2005). TSI-9 belongs to the SIRE clade of Ty1/Copia plant LTR retrotransposons and potential retroviruses (Fauquet et al. 2005). This clade is evolutionarily related to another clade of plant Ty1/Copia LTR retrotransposons called Oryco (Llorens et al. 2009). SIRE clade gives the name to a genus within the current ICTV classification of the Ty1/Copia into three genera – Pseudovirus, Hemivirus and Sirevirus (Boeke et al. 2005). The full-lenght genome of TSI-9 is 9331 bp long and includes two 1238-bps LTRs flanking an internal coding region that contains three Open Reading Frames (ORFs). The internal region displays the characteristic gag and pol domains (Kawase et al. 2005) but does not show any env-like domain. In comparison to other Ty1/Copia elements, a taxonomically relevant feature specific of Sire-like elements is their extremely large gag C-terminus consistent with the NC domain, which may display two or three CCHC arrays (Llorens et al. 2009) Structure 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 Mobile DNA II. (Craig et al. 2002)

Genbank accession: 62318488 Clade: Sire Cluster or genus: Sirevirus Branch or class: Branch 2 Family: Ty1/Copia System: LTR retroelements Host: Explore the Tree Life Project Setaria italica Courtesy of Giorgio Venturini Browse all elements