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1.

Genetic Dissection of the RNA Polymerase II Transcription Cycle with ChRO-seq from F1 hybrid mice

(Submitter supplied) How DNA sequence affects the dynamics and position of RNA Polymerase II during transcription remains poorly understood. Here we used naturally occurring genetic variation in F1 hybrid mice to explore how DNA sequence differences affect the genome-wide distribution of Pol II. We measured the position and orientation of Pol II in eight organs collected from heterozygous F1 hybrid mice using ChRO-seq. Our data revealed a strong genetic basis for the precise coordinates of transcription initiation and promoter proximal pause, which was composed of both existing and novel DNA sequence motifs, allowing us to redefine molecular models of both core transcriptional processes. Our results implicate the strength of base pairing between A-T or G-C dinucleotides as key determinants to the position of Pol II initiation and pause. We reveal substantial and heritable differences in the position of transcription termination, which frequently do not affect the composition of the mature mRNA. Finally, we identified frequent, organ-specific changes in transcription that affect mRNA and ncRNA expression across broad genomic domains. Collectively, we reveal how DNA sequences shape core transcriptional processes at single nucleotide resolution in mammals.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL21103 GPL19057
67 Samples
Download data: BOWTIE, BW, TXT
Series
Accession:
GSE174171
ID:
200174171
2.

Illumina HiSeq 4000 (Mus musculus)

Platform
Accession:
GPL21103
ID:
100021103
3.

GI_MB6_F

Organism:
Mus musculus
Source name:
Large intestine
Platform:
GPL21103
Series:
GSE174171
Download data
Sample
Accession:
GSM5288418
ID:
305288418
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