Element:RetroSor1

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Description

RetroSor1 is a LTR retrotransposon described from sequencing data in Sorghum bicolor (Llaca et al. 1998). This element belongs to a lineage of plant LTR retrotransposons (Tat), sibling of other lineage of putative plant endogenous retroviruses (Athila), providing evidence of a shared ancestral lineage originally described as class A by Wright and Voytas (1998). The genomic structure of RetroSor1 is 13.4 Kb in size including LTRs of 0.7 Kb. The internal region displays a Primer Binding Site (PBS) complementary to a tRNALys, a single Open Reading Frame (ORF) coding for a gag-pol polyprotein, a untranslated (UTR) region downstream to the integrase domain of approximately 6.4 Kb in size, and also, a Polypurine Tract (PPT) adjacent to the 3´LTR (Llaca et al. 1998).

Structure

Retrosor1.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: AF098806
Clade: Tat
Cluster or genus: Athila/Tat
Branch or class: Branch 2
Family: Ty3/Gypsy
System: LTR retroelements
Host:
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Sorghum bicolor.gif
Sorghum bicolor
Image, courtesy of Juan Bibiloni, Jardin Botanico Mundani
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Welcome to the Gypsy Database (GyDB) an open editable database about the evolutionary relationship of viruses, mobile genetic elements (MGEs) and the genomic repeats where we invite all authors to contribute with their knowledge to improve and expand the topics.
Cite this project:

Llorens, C., Futami, R., Covelli, L., Dominguez-Escriba, L., Viu, J.M., Tamarit, D., Aguilar-Rodriguez, J. Vicente-Ripolles, M., Fuster, G., Bernet, G.P., Maumus, F., Munoz-Pomer, A., Sempere, J.M., LaTorre, A., Moya, A. (2011) The Gypsy Database (GyDB) of Mobile Genetic Elements: Release 2.0 Nucleic Acids Research (NARESE) 39 (suppl 1): D70-D74 doi: 10.1093/nar/gkq1061

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