Element:Tto1

Revision as of 14:33, 19 January 2010 by imported>Gydbwiki
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)

Description

Tto1, a Ty1/Copia-like LTR retrotransposon described in Nicotiana tabacum (Hirochika et al. 1996). This element belongs to the Tork clade within Branch 2 of the Ty1/Copia family (Llorens et al. 2009). Its genome is 5300 bp in size, including two identical LTRs of 574 bp long. The LTRs flanked internal region encodes for a single Open Reading Frame (ORF) of 1338 amino acids with the typical gag and pol structure: gag, protease, integrase, reverse transcriptase and ribonuclease H (Hirochika et al. 1996).

Structure

Tto-1.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: 1167522
Clade: Tork
Cluster or genus: Undetermined
Branch or class: Branch 2
Family: Ty1/Copia
System: LTR retroelements
Host:
Explore the Tree Life Project
Nicotiana tabacum.jpg
Nicotiana tabacum
Courtesy of the New York Botanical Garden
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