Element:SPM

From The Gypsy Database

Description

Strongylocentrotus purpuratus Mag element (SPM) is a Ty3/Gypsy LTR retrotransposon described in the genome of Strongylocentrotus purpuratus (Llorens et al 2009). SPM belongs, along with other LTR retrotransposons, to Mag a large Ty3/Gypsy cluster widely distributed in both protostomes and deuterostomes (for more details, see Malik and Eickbush 1999; Volff et al. 2001; Tubio, Naveira and Costas 2004). The genomic structure of SPM is 5.2 Kb in size including LTRs of 0.13 kb. The internal region of this element displays a Primer Binding Site (PBS), three Open Reading Frames (ORFs) that code for gag, protease, and pol (RT- RNAseH-INT) polyprotein domains, and a Polypurine Tract (PPT) adjacent to the 3´LTR.

Structure

SPM.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:115913323
Clade:A-clade
Cluster or genus:Mag
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Strongylocentrotus purpuratus.jpg
Strongylocentrotus purpuratus
Wikipedia, courtesy of "Taollan82"
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