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Super Enhancer Details

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General details

Super-Enhancer ID: mSE_10456
Genomic locus: chr3:8976086-9015481
Size/Length: 39395 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_009412
Gene Symbol: Tpd52
Chromosome: chr3
TSS: 8929435 (Transcription start site)
TES: 9004515 (Transcription end site)
Strand: -
Number of Exons: 6
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



>chr3:8976086-9015481
Sequence preview unavailable; use Download FASTA.

Wiggle files

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

Constituents of Super-enhancer - mSE_10456

Constituent ID SE ID Chrom Start End Constituent Size MACS score
CM035791 mSE_10456 chr3 8976086 8977014 928 197.19
CM035792 mSE_10456 chr3 8987662 8989294 1632 690.83
CM035793 mSE_10456 chr3 8989519 8991142 1623 680.48
CM035794 mSE_10456 chr3 8999262 8999994 732 116.29
CM035795 mSE_10456 chr3 9002882 9005012 2130 592.19
CM035796 mSE_10456 chr3 9007667 9008721 1054 355.96
CM035797 mSE_10456 chr3 9008734 9009731 997 611.73
CM035798 mSE_10456 chr3 9014678 9015481 803 274.01