Super Enhancer Details

General details

Super-Enhancer ID:	SE_00686
Genomic locus:	chr9:134572444-134615352
Size/Length:	42908 bp
Genome:	Human - hg19
Cell/Tissue:	Adipose Nuclei
Factor(s) Used:	H3K27ac - (Used to define enhancers) H3K27ac - (Used to rank SEs)
Input/WCE:	GSM621401
Reference:	Hnisz D. et al., 2013 Cell - 24119843

Associated gene details

RefSeq ID:	NM_198679
Gene Symbol:	RAPGEF1
Chromosome:	chr9
TSS:	134452156 (Transcription start site)
TES:	134615331 (Transcription end site)
Strand:	-
Number of Exons:	24
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

>chr9:134572444-134615352
Sequence preview unavailable; use Download FASTA.

Wiggle files

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

Constituents of Super-enhancer - SE_00686

Constituent ID	SE ID	Chrom	Start	End	Constituent Size	MACS score
C006094	SE_00686	chr9	134572444	134574595	2151	151.08
C006095	SE_00686	chr9	134574690	134578096	3406	545.32
C006096	SE_00686	chr9	134578827	134586282	7455	3100
C006097	SE_00686	chr9	134586827	134592597	5770	2292.58
C006098	SE_00686	chr9	134593154	134596143	2989	581.91
C006099	SE_00686	chr9	134602683	134604709	2026	190.53
C006100	SE_00686	chr9	134606247	134608316	2069	353.38
C006101	SE_00686	chr9	134608884	134613190	4306	734.68
C006102	SE_00686	chr9	134613700	134615352	1652	449.14