Super Enhancer Details

General details

Super-Enhancer ID:	mSE_00198
Genomic locus:	chr16:84769173-84780686
Size/Length:	11513 bp
Genome:	Mouse - mm9
Cell/Tissue:	Embryonic stem cells
Factor(s) Used:	Oct4 - Nanog - Sox2 - (Used to define enhancers) Med1 - (Used to rank SEs)
Input/WCE:	GSM560357
Reference:	Whyte WA. et al., 2013 Cell - 23582322

Associated gene details

RefSeq ID:	NM_023844
Gene Symbol:	Jam2
Chromosome:	chr16
TSS:	84774367 (Transcription start site)
TES:	84826620 (Transcription end site)
Strand:	+
Number of Exons:	10
External Links:

Software and parameters used

Stitching Distance:	12.5 kb
Read Mapping:	Bowtie (version 0.12.9) with parameters -k 2, -m 3, -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

>chr16:84769173-84780686
Sequence preview unavailable; use Download FASTA.

Wiggle files

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

Constituents of Super-enhancer - mSE_00198

Constituent ID	SE ID	Chrom	Start	End	Constituent Size	MACS score