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Super Enhancer Details

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General details

Super-Enhancer ID: mSE_10105
Genomic locus: chr3:34632916-34669125
Size/Length: 36209 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_011443
Gene Symbol: Sox2
Chromosome: chr3
TSS: 34548926 (Transcription start site)
TES: 34551382 (Transcription end site)
Strand: +
Number of Exons: 1
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



>chr3:34632916-34669125
Sequence preview unavailable; use Download FASTA.

Wiggle files

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

Constituents of Super-enhancer - mSE_10105

Constituent ID SE ID Chrom Start End Constituent Size MACS score
CM035804 mSE_10105 chr3 34632916 34634839 1923 673.43
CM035805 mSE_10105 chr3 34637643 34638407 764 91.36
CM035806 mSE_10105 chr3 34643216 34644506 1290 545.13
CM035807 mSE_10105 chr3 34644519 34645281 762 189.04
CM035808 mSE_10105 chr3 34651924 34653092 1168 265.01
CM035809 mSE_10105 chr3 34653402 34662317 8915 3100
CM035810 mSE_10105 chr3 34663070 34665099 2029 1199.64
CM035811 mSE_10105 chr3 34668246 34669125 879 181.62