Element:Hydra2-1

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 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 Mobile DNA II. (Craig et al. 2002)

Genbank accession: 204647056 Clade: A-clade Cluster or genus: Mag Branch or class: Branch 2 Family: Ty3/Gypsy System: LTR retroelements Host: Explore the Tree Life Project Hydra_magnipapillata Wikimedia commons (image from PLoS journals), courtesy of Friederike Anton-Erxleben Browse all elements