B1147A04.5 is a giant Ty3/Gypsy LTR retrotransposon characterized by sequencing data in Oryza sativa (Sasaki et al. 2002). This element belongs to a lineage of plant LTR retrotransposons (Tat), sibling of other lineage of putative plant endogenous retroviruses (Athila), providing evidence of a shared ancestral lineage originally described as class A by Wright and Voytas (1998). The genomic structure of B1147A04.5 is 22.2 Kb in size including LTRs of 1 Kb. The internal region of this element displays a Primer Binding Site (PBS) complementary to a tRNAArg, Open Reading Frames (ORFs) for gag, and pol genes, and a Polypurine Tract (PPT) adjacent to the 3′LTR (pol gene displays several stop codons, indicating that this clone is probably not functional).
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