Element:Hydra2-1

From The Gypsy Database

Description

Hydra2-1 is a Ty3/Gypsy LTR retrotransposon described in the genome of Hydra magnipapillata (Llorens et al 2009). Hydra2-1 belongs, along with other LTR retrotransposons, to Mag a large Ty3/Gypsy cluster widely distributed in both protostomes and deuterostomes (for more details, see Malik and Eickbush 1999; Volff et al. 2001; Tubio, Naveira and Costas 2004). The genomic structure of SPM is 4.8 Kb in size including LTRs of 0.22 kb. The internal region of this element displays a Primer Binding Site (PBS), a single Open Reading Frame (ORF) that codes for a single gag-pol polyprotein, and a Polypurine Tract (PPT) adjacent to the 3´LTR.

Structure

Hydra2-1.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:204647056
Clade:A-clade
Cluster or genus:Mag
Branch or class:Branch 2
Family:Ty3/Gypsy
System:LTR retroelements
Host:
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Hydra magnipapillata.jpg
Hydra_magnipapillata
Wikimedia commons (image from PLoS journals), courtesy of Friederike Anton-Erxleben
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