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. Author manuscript; available in PMC: 2009 Oct 1.
Published in final edited form as: Biotechniques. 2009 Apr;46(4):277–284. doi: 10.2144/000113089

Figure 1. Genomic location and genotyping of the L1 retrotransposon insertion in accession no. AL137164.

Figure 1

(A) Illustration of the genomic region containing the AL137164 L1Hs insertion and PCR primer placement. BLAT (19) searches of the genomic sequence flanking the L1 indicate that it occurs in intron 2 of the STXBP6 (amisyn) gene. The genomic coordinates of STXBP6 are indicated above the intron/exon structure diagram. The insertion does not occur within any of the repeat/indel/structural variation annotation tracks available at the University of California Santa Cruz’s genome browser (20) (http://genome.ucsc.edu, data not shown). (B) The AL137164 L1 insertion is absent from a panel of unrelated Zimbabweans. The original two PCR genotyping assays were performed using genomic DNA from 72 unrelated Zimbabwean males. DNA from PCR reactions was immobilized on nylon membranes using a dotblot manifold and UV cross-linking, and hybridized with a radio-labeled probe derived from the empty site. No hybridization signals were detected on the filled site (L1-specific) membrane, with the exception of HeLa DNA–positive controls (H2/H4), while the empty site membrane showed hybridization for all DNA.