Element:rGmr1

Description rGmr1 is the counterpart of Gmr1 found in the genome of the zebrafish Danio rerio (Butler et al. 2001; Goodwin and Poulter 2002). These constitute an own clade, together with other elements from diverse vertebrates, possibly related via sequence similarity with Osvaldo clade (Butler et al. 2001; Goodwin and Poulter 2002; Llorens et al. 2009). rGmr1-like elements differ from other Ty3/Gypsy LTR retroelements in the fact that the integrase domain lies upstream of the reverse transcriptase domain, an arrangement which is characteristic of Ty1/Copia LTR retroelements (Butler et al. 2001; Goodwin and Poulter 2002). The genomic structure of rGmr1 is 4.8 Kb in size including LTRs of 21 nt. The internal region displays a Primer Binding Site (PBS), a single Open Reading Frame (ORF) that codes for a gag-pol polyprotein, and a Polypurine Tract (PPT) adjacent to the 3´LTRs. 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: 125846079 Clade: Gmr1 Cluster or genus: Undetermined Branch or class: Branch 2 Family: Ty3/Gypsy System: LTR retroelements Host: Explore the Tree Life Project Danio rerio Image, courtesy of Wikipedia Browse all elements