Element:Hydra1-1

Description Hydra1-1 is a Ty1/Copia LTR retrotransposon found in the genome of the simple freshwater animal Hydra magnipapillata (GenBank accession NW_002165175). It belongs and gives the name to Hydra clade within Branch 2 of the Ty1/Copia LTR retrotransposons family (Llorens et al. 2009). The genome of Hydra1-1 is 4306 bp in size, including LTRs of 163 bp long. The LTRs flanked internal region encodes for a single long ORF that, although is broken by two stop codons, contains the typical gag-pol domains structure of Ty1/Copia LTR retrotransposons (gag, protease, integrase, reverse transcriptase and ribonuclease H). 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: 194993408 Clade: Hydra Cluster or genus: Undetermined Branch or class: Branch 2 Family: Ty1/Copia 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