Element:Gabel

From The Gypsy Database

Description

Gabel is a LTR retrotransposon found in three-spined stickleback fish Gasterosteus aculeatus (Llorens et al. 2009). Its name is an acronym derived from “Gasterosteus aculeatus Bel/Pao element”. Gabel belongs to the Suzu clade (Copeland et al. 2005) within Branch 2 of the Bel/Pao family (Llorens et al. 2009). Its genome is 7255 bp long, including LTRs of 440 nt. The internal region of this element contains three ORFs encoding for the gag and pol polyproteins. The largest ORF of 1254 amino acids (aa) displays the three gag domains (MA, CA, and NC) and the protease and reverse transcriptase domains. The second (262 aa) and the third (398 aa) ORFs code respectively for the putative RNase H and integrase pol proteins (Llorens et al. 2009).

Structure

Gabel.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:83921752
Clade:Suzu
Cluster or genus:Undetermined
Branch or class:Branch 3
Family:Bel/Pao
System:LTR retroelements
Host:
Explore the Tree Life Project
Gasterosteus aculeatus.jpg
Gasterosteus aculeatus
Courtesy of Laurie Campbell (Great British Wildlife web site)
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.