modENCODE RNA-Seq (Tissues) Track Settings

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modENCODE RNA-Seq for Different Tissues (All Updated Transcriptome Tracks)

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Graph configuration help

Select subtracks by strand and tissue: (help)

All	*Strand*	Plus	Minus
*Tissue*
Third Instar Imaginal Disc
Third Instar CNS
Prepupa CNS
Virgin Adult Female Head
Mated Adult Female Head
Adult Male Head
Third Instar Salivary Gland
Prepupa Salivary Gland
Third Instar Digestive System
Adult Digestive System
Third Instar Fat Body
Prepupa Fat Body
Virgin Adult Female Ovary
Mated Adult Female Ovary
Adult Male Testis
Adult Male Accessory Gland

Select subtracks further by: (select multiple categories and items - help)

TissueGroup:

List subtracks: only selected/visible all ()
	hide Configure	Third Instar Imaginal Disc (Plus)	RNA-seq for Third Instar Imaginal Disc (Plus)	Schema
	hide Configure	Third Instar Imaginal Disc (Minus)	RNA-seq for Third Instar Imaginal Disc (Minus)	Schema
	hide Configure	Third Instar CNS (Plus)	RNA-seq for Third Instar CNS (Plus)	Schema
	hide Configure	Third Instar CNS (Minus)	RNA-seq for Third Instar CNS (Minus)	Schema
	hide Configure	Prepupa CNS, 2d (Plus)	RNA-seq for 2 days Prepupa CNS (Plus)	Schema
	hide Configure	Prepupa CNS, 2d (Minus)	RNA-seq for 2 days Prepupa CNS (Minus)	Schema
	hide Configure	Virgin Adult Female Head, 1d (Plus)	RNA-seq for 1 day Virgin Adult Female Head (Plus)	Schema
	hide Configure	Virgin Adult Female Head, 1d (Minus)	RNA-seq for 1 day Virgin Adult Female Head (Minus)	Schema
	hide Configure	Virgin Adult Female Head, 4d (Plus)	RNA-seq for 4 days Virgin Adult Female Head (Plus)	Schema
	hide Configure	Virgin Adult Female Head, 4d (Minus)	RNA-seq for 4 days Virgin Adult Female Head (Minus)	Schema
	hide Configure	Virgin Adult Female Head, 20d (Plus)	RNA-seq for 20 days Virgin Adult Female Head (Plus)	Schema
	hide Configure	Virgin Adult Female Head, 20d (Minus)	RNA-seq for 20 days Virgin Adult Female Head (Minus)	Schema
	hide Configure	Mated Adult Female Head, 1d (Plus)	RNA-seq for 1 day Mated Adult Female Head (Plus)	Schema
	hide Configure	Mated Adult Female Head, 1d (Minus)	RNA-seq for 1 day Mated Adult Female Head (Minus)	Schema
	hide Configure	Mated Adult Female Head, 4d (Plus)	RNA-seq for 4 days Mated Adult Female Head (Plus)	Schema
	hide Configure	Mated Adult Female Head, 4d (Minus)	RNA-seq for 4 days Mated Adult Female Head (Minus)	Schema
	hide Configure	Mated Adult Female Head, 20d (Plus)	RNA-seq for 20 days Mated Adult Female Head (Plus)	Schema
	hide Configure	Mated Adult Female Head, 20d (Minus)	RNA-seq for 20 days Mated Adult Female Head (Minus)	Schema
	hide Configure	Adult Male Head, 1d (Plus)	RNA-seq for 1 day Adult Male Head (Plus)	Schema
	hide Configure	Adult Male Head, 1d (Minus)	RNA-seq for 1 day Adult Male Head (Minus)	Schema
	hide Configure	Adult Male Head, 4d (Plus)	RNA-seq for 4 days Adult Male Head (Plus)	Schema
	hide Configure	Adult Male Head, 4d (Minus)	RNA-seq for 4 days Adult Male Head (Minus)	Schema
	hide Configure	Adult Male Head, 20d (Plus)	RNA-seq for 20 days Adult Male Head (Plus)	Schema
	hide Configure	Adult Male Head, 20d (Minus)	RNA-seq for 20 days Adult Male Head (Minus)	Schema
	hide Configure	Third Instar Salivary Gland (Plus)	RNA-seq for Third Instar Salivary Gland (Plus)	Schema
	hide Configure	Third Instar Salivary Gland (Minus)	RNA-seq for Third Instar Salivary Gland (Minus)	Schema
	hide Configure	Prepupa Salivary Gland (Plus)	RNA-seq for Prepupa Salivary Gland (Plus)	Schema
	hide Configure	Prepupa Salivary Gland (Minus)	RNA-seq for Prepupa Salivary Gland (Minus)	Schema
	hide Configure	Third Instar Digestive System (Plus)	RNA-seq for Third Instar Digestive System (Plus)	Schema
	hide Configure	Third Instar Digestive System (Minus)	RNA-seq for Third Instar Digestive System (Minus)	Schema
	hide Configure	Adult Digestive System, 1d (Plus)	RNA-seq for 1 day Adult Digestive System (Plus)	Schema
	hide Configure	Adult Digestive System, 1d (Minus)	RNA-seq for 1 day Adult Digestive System (Minus)	Schema
	hide Configure	Adult Digestive System, 4d (Plus)	RNA-seq for 4 days Adult Digestive System (Plus)	Schema
	hide Configure	Adult Digestive System, 4d (Minus)	RNA-seq for 4 days Adult Digestive System (Minus)	Schema
	hide Configure	Adult Digestive System, 20d (Plus)	RNA-seq for 20 days Adult Digestive System (Plus)	Schema
	hide Configure	Adult Digestive System, 20d (Minus)	RNA-seq for 20 days Adult Digestive System (Minus)	Schema
	hide Configure	Third Instar Fat Body (Plus)	RNA-seq for Third Instar Fat Body (Plus)	Schema
	hide Configure	Third Instar Fat Body (Minus)	RNA-seq for Third Instar Fat Body (Minus)	Schema
	hide Configure	Prepupa Fat Body (Plus)	RNA-seq for Prepupa Fat Body (Plus)	Schema
	hide Configure	Prepupa Fat Body (Minus)	RNA-seq for Prepupa Fat Body (Minus)	Schema
	hide Configure	Prepupa Fat Body, 2d (Plus)	RNA-seq for 2 days Prepupa Fat Body (Plus)	Schema
	hide Configure	Prepupa Fat Body, 2d (Minus)	RNA-seq for 2 days Prepupa Fat Body (Minus)	Schema
	hide Configure	Virgin Adult Female Ovary, 4d (Plus)	RNA-seq for 4 days Virgin Adult Female Ovary (Plus)	Schema
	hide Configure	Virgin Adult Female Ovary, 4d (Minus)	RNA-seq for 4 days Virgin Adult Female Ovary (Minus)	Schema
	hide Configure	Mated Adult Female Ovary, 4d (Plus)	RNA-seq for 4 days Mated Adult Female Ovary (Plus)	Schema
	hide Configure	Mated Adult Female Ovary, 4d (Minus)	RNA-seq for 4 days Mated Adult Female Ovary (Minus)	Schema
	hide Configure	Adult Male Testis, 4d (Plus)	RNA-seq for 4 days Adult Male Testis (Plus)	Schema
	hide Configure	Adult Male Testis, 4d (Minus)	RNA-seq for 4 days Adult Male Testis (Minus)	Schema
	hide Configure	Adult Male Accessory Gland, 4d (Plus)	RNA-seq for 4 days Adult Male Accessory Gland (Plus)	Schema
	hide Configure	Adult Male Accessory Gland, 4d (Minus)	RNA-seq for 4 days Adult Male Accessory Gland (Minus)	Schema

Description

These tracks show the strand-specific RNA-Seq coverage for different tissues of D. melanogaster. The RNA-Seq read coverage was normalized by a wigsum of 100,000,000 (1 million 100bp reads) using the bam2wig.py program in RSeQC.

The RNA-Seq reads were obtained from the ENCODE data portal at UCSC on August 2019, and then mapped against the D. melanogaster dm6 genome assembly using HISAT2. For each stage of development, results from multiple replicates were combined into a single RNA-Seq read coverage track.

References

Brown JB, et al. Diversity and dynamics of the Drosophila transcriptome. Nature. 2014 Aug 28;512(7515):393-9.

Kim D, Langmead B, Salzberg SL. HISAT: a fast spliced aligner with low memory requirements. Nat Methods. 2015 Apr;12(4):357-60.

Wang L, Wang S, Li W. RSeQC: quality control of RNA-seq experiments. Bioinformatics. 2012 Aug 15;28(16):2184-5.