GSM6829423: cs_CK1_rnaseq; Triticum aestivum; RNA-Seq - SRA

SRX18690904: GSM6829423: cs_CK1_rnaseq; Triticum aestivum; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 7.2M spots, 2.2G bases, 742Mb downloads

External Id: GSM6829423_r1

Submitted by: Functional Epigenomics Group, National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology,Chinese Academy of Sciences

Study: Subgenome-specific usage of transposable element-derived promoters and enhancers in bread wheat development

PRJNA814385 • SRP363290 • All experiments • All runs

show Abstracthide Abstract

Transcription start site (TSS) is the hub integrating regulatory input from promoters and enhancers. Common wheat converged three subgenomes adapted to different environment and established as a major crop worldwide. Detection of more precise and new TSS of both genes and enhancers in common wheat is the basis in interpreting transcriptional regulatory networks as well as the subgenome divergent regulation in their entirety. Overall design: In the present study, we profiled the genome wide TSS by CAGE-seq together with DNA methylation and histone modifications from four typical tissues in common wheat, the resulting catalogue of enhancers enabled more precise detection of ubiquitous and tissue specific TSS usage of coding genes and enhancers.

Sample: cs_CK1_rnaseq

SAMN32218678 • SRS16133678 • All experiments • All runs

Organism: Triticum aestivum

Library:

Name: GSM6829423

Instrument: Illumina NovaSeq 6000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: PAIRED

Construction protocol: The spikelets at booting stage (Feeke 10) were harvested and frozen in liquid nitrogen for RNA isolation. More than 2 μg total RNA was used to prepare each sequencing sample. Libraries were constructed and sequenced by Hanyubio Co. Ltd. (Shanghai, China) to produce 150-bp paired-end reads.

Runs: 1 run, 7.2M spots, 2.2G bases, 742Mb

Run	# of Spots	# of Bases	Size	Published
SRR22729399	7,178,217	2.2G	742Mb	2023-10-12

ID:: 25756189

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Sequence Read Archive

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