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Series GSE51299 Query DataSets for GSE51299
Status Public on Feb 28, 2014
Title The 3′ extremity of mRNA unveiled by TAIL-seq
Organisms Homo sapiens; Mus musculus
Experiment type Other
Summary Global investigation of the 3′ extremity of mRNA, despite its importance in gene regulation, has not been feasible due to technical challenges associated with homopolymeric sequences and relative paucity of mRNA. By developing a new methodology, TAIL-seq, we find a number of unforeseen features at the 3′ termini of mRNA. Our analyses reveal the transcriptome-wide distribution of poly(A) tail and estimate the median poly(A) length as 55-60 nt in mammalian cells, which is substantially shorter than generally conceived. Poly(A) length correlates with mRNA half-life but not with translation efficiency. Surprisingly, we find widespread uridylation and guanylation at the downstream of poly(A) tail. The U-tails are generally attached to short poly(A) tails (<25 nt) while the G-tails are found mainly on longer poly(A) tails (>40 nt), implicating their generic roles in mRNA stability control. In addition, TAIL-seq identifies, with a single nucleotide resolution, numerous nucleolytic events involved in microRNA processing and mRNA cleavage.
Overall design Single replicate without any special experimental treatment for each of mouse fibroblast cell line NIH3T3 and human cervical cell line HeLa.
Contributor(s) Chang H, Lim J, Kim VN
Citation(s) 24582499
Submission date Sep 30, 2013
Last update date May 15, 2019
Contact name Hyeshik Chang
Organization name Seoul National University
Department School of Biological Sciences
Lab Hyeshik Chang Lab
Street address Building 203 Room 525, School of Biological Sciences, Seoul National University, 1 Gwanak-ro, Gwanak-gu
City Seoul
State/province South Korea
ZIP/Postal code 08826
Country South Korea
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (2)
GSM1242324 NIH3T3
GSM1242325 HeLa
BioProject PRJNA222328
SRA SRP030645

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Supplementary file Size Download File type/resource
GSE51299_RAW.tar 370.0 Kb (http)(custom) TAR (of CSV)
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Raw data are available in SRA
Processed data provided as supplementary file

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