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SRX018832: PEAT used for analysis on 0-24h mixed stage Drosophila melanogaster embryos
2 ILLUMINA (Illumina Genome Analyzer) runs: 17.5M spots, 1.2G bases, 805.6Mb downloads

Design: 5' linker sequence for Transcription Start Site Read: GTTGGACTCGAGCGTA 5' linker sequence for Downstream Read: GTCGGATAGGCCGTCT
Submitted by: (DUKE)
Study: A paired-end sequencing strategy to map the complex landscape of transcription
show Abstracthide Abstract
Recent high-throughput sequencing protocols have uncovered the complexity of mammalian transcription by RNA polymerase II, helping to define several initiation patterns in which transcription start sites (TSSs) cluster within both narrow and broad genomic windows. Here, we describe an improved paired-end sequencing strategy, which enables more robust mapping and characterization of capped transcripts. This strategy was applied to explore the transcription initiation landscape in the Drosophila melanogaster embryo. Extending the previous findings in mammals, we found that fly promoters exhibit distinct initiation patterns, which are linked to specific promoter sequence motifs. Furthermore, we identified a large number of 5’ capped transcripts originating from coding exons; analyses support that they are unlikely the result of alternative TSSs, but rather the product of post-transcriptional modifications. Taken together, paired-end TSS analysis is demonstrated to be a powerful method to uncover the transcriptional complexity of eukaryotic genomes.
Sample: Drosophila melanogaster 0-24h mixed stage embryos
SAMN00017217 • SRS058861 • All experiments • All runs
Name: Peat0-24hDmelEmbryo
Instrument: Illumina Genome Analyzer
Strategy: EST
Selection: other
Layout: PAIRED
Spot descriptor:
forward36  reverse

Experiment attributes:
library_selection: CAGE
library_strategy: TSS
Runs: 2 runs, 17.5M spots, 1.2G bases, 805.6Mb
Run# of Spots# of BasesSizePublished


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