Super Enhancer Details

General details

Super-Enhancer ID:	SE_00678
Genomic locus:	chr3:53156241-53204570
Size/Length:	48329 bp
Genome:	Mouse -
Cell/Tissue:	Adipose Nuclei
Factor(s) Used:	- (Used to define enhancers) - (Used to rank SEs)
Input/WCE:	GSM621401
Reference:	Hnisz D. et al., 2013 Cell - 24119843

Associated gene details

RefSeq ID:	NM_006254
Gene Symbol:	PRKCD
Chromosome:	chr3
TSS:	53195222 (Transcription start site)
TES:	53226733 (Transcription end site)
Strand:	+
Number of Exons:	19
External Links:

Software and parameters used

Stitching Distance:	12.5 kb
Read Mapping:	Bowtie (version 0.12.9) with parameters -k 2, -m 2, -n 2, -best.
Peak Calling:	MACS (version 1.4.1) with parameters -p 1e-9,-keep-dup = auto, -w -S -space = 50
TSS Exclusive Zone:	+/- 2 kb
Enhancer-gene Assignment:	Genes were assigned to SEs within a 50 kb window. In cases where experimentally verified enhancer-gene assignments were available, genes were assigned to enhancers based on those studies.

FASTA sequence

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Wiggle files

Download Wiggle (WIG) files, generated by original data source.

Constituents of Super-enhancer - SE_00678

Constituent ID	SE ID	Chrom	Start	End	Constituent Size	MACS score
C004122	SE_00678	chr3	53156241	53158352	2111	490.64
C004123	SE_00678	chr3	53163263	53166282	3019	2515.67
C004124	SE_00678	chr3	53168835	53170903	2068	251.07
C004125	SE_00678	chr3	53183248	53185494	2246	291.66
C004126	SE_00678	chr3	53186813	53190649	3836	1331.31
C004127	SE_00678	chr3	53192019	53202178	10159	3100
C004128	SE_00678	chr3	53202928	53204570	1642	202.56