Distal sites of retroviral integration are indicative of chromatin loop presence.

<p>A 3C analysis was done in the mouse T-cell hybridoma cell line, 49100.2, and interaction frequency was determined via densitometry of PCR products on an agarose gel stained with ethidium bromide. All interaction frequencies were normalized to corresponding ligation control products and error bars indicate S.D. from triplicate PCRs of two independently generated 3C libraries. Mapped integrations listed in the RTCGD are depicted as black dots. (<b>a</b>) Two long-range interactions that correspond to sites of distal integrations are detected at the <i>Ccnd1</i> locus. (<b>b</b>) One long-range interaction is detected upstream of the <i>Ccnd2</i> locus. (<b>c</b>) Large chromatin loops are also present at the <i>Ccnd3</i> and <i>Jundm2</i> loci.