Element:Cer10-1

From The Gypsy Database

Description

Cer10-1 is a LTR retrotransposon described in the genome of the nematode Caenorhabditis elegans (Bowen and McDonald 1999). This element tentatively belongs to the Tas clade (Copeland et al. 2005) within Branch 1 of the Bel/Pao family (Llorens et al. 2009) but depending on the protein domain phylogenetically evaulate it can fall outside to this clade. This suggests that Cer10 might constitute an own clade within the Bel/Pao phylogeny. The genome of Cer10-1 is 8 Kb in size (8097 bp in lenght), the internal coding region is disrupted by several stop codons and frameshiftings, but the different gag and pol domains of LTR retrotransposons are clearly evident in the sequence of this element (Bowen and McDonald 1999). No information about the Cer10-1 LTRs is yet available.

Structure

Cer10-1.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:2384909
Clade:Tas
Cluster or genus:Undetermined
Branch or class:Branch 1
Family:Bel/Pao
System:LTR retroelements
Host:
Explore the Tree Life Project
Caenorhabditis elegans.gif
Caenorhabditis elegans
Image, courtesy of Ralf J. Sommer, Max Planck Institute for Developmental Biology
Browse all elements
Jump to: navigation, search


This website use cookies, by continuing to browse the site you are agreeing to our use of cookies. More info about our cookies here.