Super Enhancer Details

General details

Super-Enhancer ID:	SE_00416
Genomic locus:	chr1:39541434-39621629
Size/Length:	80195 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_004552
Gene Symbol:	NDUFS5
Chromosome:	chr1
TSS:	39491966 (Transcription start site)
TES:	39500308 (Transcription end site)
Strand:	+
Number of Exons:	3
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_00416

Constituent ID	SE ID	Chrom	Start	End	Constituent Size	MACS score
C000157	SE_00416	chr1	39541434	39543354	1920	1259.65
C000158	SE_00416	chr1	39547597	39548682	1085	102.45
C000159	SE_00416	chr1	39551421	39553690	2269	302.47
C000160	SE_00416	chr1	39554454	39557423	2969	725.43
C000161	SE_00416	chr1	39568050	39577502	9452	3100
C000162	SE_00416	chr1	39582226	39584408	2182	264.93
C000163	SE_00416	chr1	39592440	39600925	8485	2345.58
C000164	SE_00416	chr1	39607432	39609721	2289	432.02
C000165	SE_00416	chr1	39618666	39621629	2963	1012.43