Element:Saci-6

Description Saci-6 is one of the several LTR retrotransposons characterized in the human parasite blood fluke Schistosoma mansoni in which have been estimated 20-200 copies of this retroelement (DeMarco et al. 2005). Saci-6 belongs to Sinbad clade (Copeland et al. 2005) within Branch 2 of the Bel/Pao LTR retrotransposon family (Llorens et al. 2009). The genome structure of Saci-6 is about 4.2 Kb in size (4236 bp long), including LTRs of 78 nt (5´LTR) and 177 nt (3´LTR). It is a truncated element which LTRs flanked a single ORF that encodes for gag and pol polyproteins. The gag polyprotein contains the matrix, capsid and nucleocapsid domains. The latter presents the characteristic triple-zinc-finger-like motifs (CCHC cysteine motifs), while pol only shows an intact protease domain and partial sequences showing similarity to the reverse transcriptase, RNase H and integrase domains (DeMarco et al. 2005). 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: 67625726 Clade: Sinbad Cluster or genus: Undetermined Branch or class: Branch 2 Family: Bel/Pao System: LTR retroelements Host: Explore the Tree Life Project Schistosoma mansoni Courtesy of Stephen J. Davies, Uniformed Services University Browse all elements