Element:Tricopia

From The Gypsy Database

Description

Tricopia is a LTR retrotransposon found in the genome of the red flour beetle Tribolium castaneum. It gives the name and constitutes a single clade within Branch 2 of the Ty1/Copia LTR retrotransposons family (Llorens et al. 2009).

The genome of Tricopia is about of 4.5 Kb (4541 bp long), including LTRs of 260 (5’LTR) and 258 (3’LTR) bp long. The LTRs flanked internal region encodes for a single long ORF that, although is disrupted by some stop codons, contains the typical gag-pol domains structure of Ty1/Copia LTR retrotransposons (gag, protease, integrase, reverse transcriptase and ribonuclease H).

Structure

Tricopia.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:86575464
Clade:Tricopia
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Ty1/Copia
System:LTR retroelements
Host:
Explore the Tree Life Project
Tribolium castaneum.gif
Tribolium castaneum
Image, courtesy of Alex Wild, Insect photography Web site \"myrmecos.net\"
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