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Super Enhancer Details

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General details

Super-Enhancer ID: mSE_10417
Genomic locus: chr6:54900761-54918438
Size/Length: 17677 bp
Genome: Mouse - mm9
Cell/Tissue: Embryonic stem cells
Factor(s) Used: H3K27ac - (Used to define enhancers)
H3K27ac - (Used to rank SEs)
Input/WCE: GSM723020
Reference: Khan A. et al., 2016 Nucleic Acids Res - 26438538

Associated gene details

RefSeq ID: NM_001171007
Gene Symbol: Nod1
Chromosome: chr6
TSS: 54873935 (Transcription start site)
TES: 54921655 (Transcription end site)
Strand: -
Number of Exons: 12
External Links:

Software and parameters used

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
Stitching Distance: 12.5 kb
TSS Exclusive Zone: +/- 2 kb
Enhancer-gene Assignment: Genes were assigned to SEs within a 50 kb window.

FASTA sequence



>chr6:54900761-54918438
Sequence preview unavailable; use Download FASTA.

Wiggle files

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

Constituents of Super-enhancer - mSE_10417

Constituent ID SE ID Chrom Start End Constituent Size MACS score
CM036594 mSE_10417 chr6 54900761 54902229 1468 482.08
CM036595 mSE_10417 chr6 54902271 54903212 941 980.35
CM036596 mSE_10417 chr6 54903776 54904556 780 887.57
CM036597 mSE_10417 chr6 54904607 54905860 1253 636.2
CM036598 mSE_10417 chr6 54906347 54906802 455 101.58
CM036599 mSE_10417 chr6 54907300 54908405 1105 190.59
CM036600 mSE_10417 chr6 54913953 54917312 3359 2603.74
CM036601 mSE_10417 chr6 54917605 54918438 833 165.99