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Super Enhancer Details

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General details

Super-Enhancer ID: SE_00375
Genomic locus: chr13:30933754-30997498
Size/Length: 63744 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_002128
Gene Symbol: HMGB1
Chromosome: chr13
TSS: 31032878 (Transcription start site)
TES: 31040081 (Transcription end site)
Strand: -
Number of Exons: 5
External Links:

Software and parameters used

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
Stitching Distance: 12.5 kb
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_00375

Constituent ID SE ID Chrom Start End Constituent Size MACS score
C001810 SE_00375 chr13 30933754 30935311 1557 150.43
C001811 SE_00375 chr13 30935355 30939473 4118 1087.31
C001812 SE_00375 chr13 30945343 30947127 1784 172.16
C001813 SE_00375 chr13 30956763 30960987 4224 851.39
C001814 SE_00375 chr13 30962049 30964667 2618 2343.58
C001815 SE_00375 chr13 30968329 30971134 2805 2460.25
C001816 SE_00375 chr13 30971873 30974173 2300 777.73
C001817 SE_00375 chr13 30975726 30985706 9980 3100
C001818 SE_00375 chr13 30994497 30996422 1925 1459.19
C001819 SE_00375 chr13 30996433 30997498 1065 231.29