Revision as of 16:22, 22 December 2009 by imported>Lcovelli
PyRE1G1 is a LTR retroelement described in the red macro alga Porphyra yezoensis (Peddigari et al. 2008). It gives the name and constitutes a single clade within Branch 2 of the Ty1/Copia LTR retrotransposons family (Llorens et al. 2009).
The full-length PyRE1G1 genome is 4807 bp in size, including two almost identical (except for a single nucleotide) 204-bp LTRs. The internal region of this element contains a single long Open Reading Frame (ORF) upstream and downstream flanked respectively by a Primer Binding Site (PBS) and a Polypurine Tract (PPT). The ORF encodes for the typical gag and pol domains of Ty1/Copia LTR retrotransposons genes: gag (in which is present the zinc finger motif of Cys-His type characteristic of the nucleocapside domain), protease, integrase, reverse transcriptase and RNase H (Peddigari et al. 2008).
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:
||DU or DUT=dUTPase
||TAV or IBMP=transactivator/viroplasmin or inclusion body matrix protein
||PBS=primer binding site
||ATF=aphid transmission factor
||VAP=virion associated protein