ChAR-seq data from a Female from Anolis carolinensis
Chromatin-associated RNA sequencing is a chromosome conformation capture method that traps RNA-to-chromatin associations (Bell, Jukam et al. 2018, Jukam, Limouse et al. 2019). This method fixes all chromatin interactions and subsequently ligates the interacting RNA and DNA ends. The ligation is done through a double-stranded sequence, called "bridge" (Jukam, Limouse et al. 2019). At its 5' end, the bridge contains an adenylated single-stranded sequence, where it binds to the 3' ends of an RNA, and at its 3' end, the bridge contains a recognition site for the DNA fragments that have been digested by the DpnII enzyme. This enzyme cuts at GATC, which fit perfectly into the "bridge". After the ligation of both fragments, the chimeric molecule (RNA-bridge-DNA) is converted to DNA and isolated by biotin pulldown. Sequencing was performed in an Illumina NovaSeq 6000 machine in Novogene, California.