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General Information
Name
TSS_modENCODE_CAGE
Species
D. melanogaster
Project type
FlyBase ID
FBlc0000738
Parent Project
Data Provider
[modENCODE: Drosophila transcriptome](http://www.modencode.org/celniker/)
Title
modENCODE_transcriptome
Accessions
Overview
Description

RNA-Seq reads of capped transcripts. Presented as frequency of strand-specific read 5' ends along the genome (uniquely mapped reads).

Key genes
GO term(s)
Details
Sample preparation
Protocol

Total RNA was primed for first strand cDNA synthesis using a random N15 primer in the presence of trehalose and sorbitol. The RNA/cDNA hybrid was purified, then capped RNA was biotinylated and purified using streptavidin beads. The first strand cDNA was ligated to another primer at the 5' end for second strand cDNA synthesis. The resulting double-stranded cDNA was cleaved using EcoP15I and a second linker was ligated to the 3' end of the ds-cDNA products. 5'-CAGE tags were purified by streptavidin then amplified by PCR.

Mode of Assay

Library was sequenced using Illumina platform.

Read length (bases):36 (27nt after 9nt adapter trimmed)

Data analysis

The 9-nt barcode linker sequence was removed, and the 27-nt CAGE reads representing capped 5’ transcript ends were aligned to the D. melanogaster genome using StatMap (http://www.statmap-bio.org/).

Comments
Files
Additional Information
Synonyms and Secondary IDs (3)
Reported As
Symbol Synonym
Cap Analysis of Gene Expression
TSS_modENCODE_CAGE
Name Synonyms
modENCODE_transcriptome
Secondary FlyBase IDs
    References (4)