RT Journal
A1 Bachman, Nurjana
A1 Eby, Yolanda
A1 Boeke, Jef D.
T1 Local Definition of Ty1 Target Preference by Long Terminal Repeats and Clustered tRNA Genes
JF Genome Research 
JO Genome Research 
YR 2004 
FD July 01 
VO 14 
IS 7 
SP 1232 
OP 1247 
DO 10.1101/gr.2052904 
UL http://genome.cshlp.org/content/14/7/1232.abstract 
AB LTR-containing retrotransposons reverse transcribe their RNA genomes, and the resulting cDNAs are integrated into the genome by the element-encoded integrase protein. The yeast LTR retrotransposon Ty1 preferentially integrates into a target window upstream of tDNAs (tRNA genes) in the yeast genome. We investigated the nature of these insertions and the target window on a genomic scale by analyzing several hundred de novo insertions upstream of tDNAs in two different multicopy gene families. The pattern of insertion upstream of tDNAs was nonrandom and periodic, with peaks separated by ∼80 bp. Insertions were not distributed equally throughout the genome, as certain tDNAs within a given family received higher frequencies of upstream Ty1 insertions than others. We showed that the presence and relative position of additional tDNAs and LTRs surrounding the target tDNA dramatically influenced the frequency of insertion events upstream of that target.