Element:Mdg3

Revision as of 17:56, 10 November 2009 by imported>Gydbwiki
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)

Description

Mdg3 is a LTR retrotransposon described in the genome of Drosophila melanogaster (Ilyin et al. 1985). Mdg3 belongs, along with other Ty3/Gypsy LTR retrotransposons, to Micropia/mdg3 clade (Malik and Eickbush 1999). The genomic structure of mdg3 is 5.5Kb in size including LTRs with a size oscillating between 267 and 293 nt (depending on the mdg3 variant). The internal region of this element displays a Primer Binding Site (PBS), a single Open Reading Frame (ORF) that codifies for a gag-pol polyprotein, and a Polypurine Tract (PPT) adjacent to the 3´LTR (Ilyin et al. 1985; Dzhumgaliev et al. 1986; Avedisov and Il'in,Iu. 1995).

Structure

Mdg3.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: X95908
Clade: Micropia/Mdg3
Cluster or genus: Undetermined
Branch or class: Branch 2
Family: Ty3/Gypsy
System: LTR retroelements
Host:
Explore the Tree Life Project
Drosophila melanogaster.gif
Drosophila melanogaster
Image, courtesy of Andreas Trepte, Max-Planck Institute for Molecular Genetics
Browse all elements



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

Contact - Announcements - Acknowledgments - Terms of use and policy - Help - Donate
Donating legal disclaimer - Terms and conditions of the donation