G4 motifs correlate with promoter-proximal transcriptional pausing in human genes. Eddy, J., Vallur, A. C, Varma, S., Liu, H., Reinhold, W. C, Pommier, Y., & Maizels, N. Nucleic acids research, 39(12):4975–83, July, 2011. ![G4 motifs correlate with promoter-proximal transcriptional pausing in human genes. [link]](https://bibbase.org/img/filetypes/link.svg "link")
Paper doi abstract bibtex The RNA Pol II transcription complex pauses just downstream of the promoter in a significant fraction of human genes. The local features of genomic structure that contribute to pausing have not been defined. Here, we show that genes that pause are more G-rich within the region flanking the transcription start site (TSS) than RefSeq genes or non-paused genes. We show that enrichment of binding motifs for common transcription factors, such as SP1, may account for G-richness upstream but not downstream of the TSS. We further show that pausing correlates with the presence of a GrIn1 element, an element bearing one or more G4 motifs at the 5'-end of the first intron, on the non-template DNA strand. These results suggest potential roles for dynamic G4 DNA and G4 RNA structures in cis-regulation of pausing, and thus genome-wide regulation of gene expression, in human cells.
@article{Eddy2011,
title = {G4 motifs correlate with promoter-proximal transcriptional pausing in human genes.},
volume = {39},
issn = {1362-4962},
url = {http://nar.oxfordjournals.org/content/early/2011/03/02/nar.gkr079.abstract http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3130262&tool=pmcentrez&rendertype=abstract},
doi = {10.1093/nar/gkr079},
abstract = {The RNA Pol II transcription complex pauses just downstream of the promoter in a significant fraction of human genes. The local features of genomic structure that contribute to pausing have not been defined. Here, we show that genes that pause are more G-rich within the region flanking the transcription start site (TSS) than RefSeq genes or non-paused genes. We show that enrichment of binding motifs for common transcription factors, such as SP1, may account for G-richness upstream but not downstream of the TSS. We further show that pausing correlates with the presence of a GrIn1 element, an element bearing one or more G4 motifs at the 5'-end of the first intron, on the non-template DNA strand. These results suggest potential roles for dynamic G4 DNA and G4 RNA structures in cis-regulation of pausing, and thus genome-wide regulation of gene expression, in human cells.},
number = {12},
journal = {Nucleic acids research},
author = {Eddy, Johanna and Vallur, Aarthy C and Varma, Sudir and Liu, Hongfang and Reinhold, William C and Pommier, Yves and Maizels, Nancy},
month = jul,
year = {2011},
pmid = {21371997},
keywords = {\#nosource, Binding Sites, Cell Line, CpG Islands, Genetic, Guanine, Guanine: analysis, Heterogeneous-Nuclear Ribonucleoproteins, Heterogeneous-Nuclear Ribonucleoproteins: metaboli, Humans, Introns, Promoter Regions, RNA Polymerase II, RNA Polymerase II: metabolism, Regulatory Elements, Transcription, Transcription Factors, Transcription Factors: metabolism, Transcription Initiation Site, Transcriptional, Tumor},
pages = {4975--83},
}
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