ArticleGenome research2005
ATG deserts define a novel core promoter subclass.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
15 citing papers in PubMed, 27 citations in OpenAlex.
- Investigation of the Wilson gene ATP7B transcriptional start site and the effect of core promoter alterations.Scientific reports · 2021Article
- Identification of putative promoters in 48 eukaryotic genomes on the basis of DNA free energy.Scientific reports · 2018Article
- Article
- A transcription factor IIA-binding site differentially regulates RNA polymerase II-mediated transcription in a promoter context-dependent manner.The Journal of biological chemistry · 2017Article
- The punctilious RNA polymerase II core promoter.Genes & development · 2017Review
- DNA structural features of eukaryotic TATA-containing and TATA-less promoters.FEBS open bio · 2017Article
- Core promoters in transcription: old problem, new insights.Trends in biochemical sciences · 2015Review
- Tissue-specific differences in the regulation of KIBRA gene expression involve transcription factor TCF7L2 and a complex alternative promoter system.Journal of molecular medicine (Berlin, Germany) · 2014Article
- Major histocompatibility complex class I core promoter elements are not essential for transcription in vivo.Molecular and cellular biology · 2013Article
- Article
- Three novel downstream promoter elements regulate MHC class I promoter activity in mammalian cells.PloS one · 2010Article
- Novel functions for TAF7, a regulator of TAF1-independent transcription.The Journal of biological chemistry · 2010Article
- The RNA polymerase II core promoter - the gateway to transcription.Current opinion in cell biology · 2008Review
- MLL protects CpG clusters from methylation within the Hoxa9 gene, maintaining transcript expression.Proceedings of the National Academy of Sciences of the United States of America · 2008Article
- Article
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Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
Abstract
The MHC class I gene, PD1, has neither functional TATAA nor Initiator (Inr) elements in its core promoter and initiates transcription at multiple, dispersed sites over an extended region in vitro. Here, we define a novel core promoter feature that supports regulated transcription through selective transcription start site (TSS) usage. We demonstrate that TSS selection is actively regulated and context dependent. Basal and activated transcriptions initiate from largely nonoverlapping TSS regions. Transcripts derived from multiple TSS encode a single protein, due to the absence of any ATG triplets within approximately 430 bp upstream of the major transcription start site. Thus, the PD1 core promoter is embedded within an "ATG desert". Remarkably, extending this analysis genome-wide, we find that ATG deserts define a novel promoter subclass. They occur nonrandomly, are significantly associated with non-TATAA promoters that use multiple TSS, independent of the presence of CpG islands (CGI). We speculate that ATG deserts may provide a core promoter platform upon which complex upstream regulatory signals can be integrated, targeting multiple TSS whose products encode a single protein.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.