Element:Cer3

From The Gypsy Database

Description

Cer3 is a LTR retrotransposon described from sequencing data in the chromosome IV of Caenorhabditis elegans (Bowen and McDonald 1999). Along with Cer2 this element constitutes Cer2-3 clade, a small clade of Ty3/Gypsy-like LTR retroelements. The genomic structure of Cer3 is 8.7 Kb in size including LTRs of 424 nt. The internal region of this element displays a Primer Binding Site (PBS) complementary to a tRNAGly, three Open Reading Frames (ORFs) for the gag-pro, pol, and int genes, and a Polypurine Tract (PPT) adjacent to the 3´LTR (Bowen and McDonald 1999; Ganko, Fielman and McDonald 2001).

Structure

Cer3.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:AF045643 (nuc 6211- 14930)
Clade:Cer2-3
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
Explore the Tree Life Project
Caenorhabditis elegans.gif
Caenorhabditis elegans
Image by courtesy of Ralf J. Sommer, Max Planck Institute for Developmental Biology
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