Deatailed information for cohesin site CDBP00419119

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  • Basic information
  • CohesinDB ID: CDBP00419119
  • Locus: chr21-38236084-38237626
  • Data sourse: ENCSR230ZWH, GSE72082, ENCSR000BLY, GSE108869, ENCSR917QNE, ENCSR000EFJ, GSE93080, ENCSR000EAC, ENCSR000DZP, GSE138405, GSE101921, GSE135093, GSE206145-NatGen2015, ENCSR703TNG, GSE85526, ENCSR000EHX, ENCSR635OSG, ENCSR000BTQ, ENCSR000HPG, ENCSR000EDE, GSE68388, GSE126990, GSE50893, GSE126755
  • Cell type: MCF-7, GM12892, GM2630, Fibroblast, Hela-Kyoto, GM10847, HEKn, MCF-10A, GM12878, GM12890, GM19238, HeLa-S3, GM2255, IMR-90, SK-N-SH, Liver, Neutrophil, HuCC-T1
  • DNA Sequence of binding site: UCSC hg38
  • Cohesin category
  • Peak occupancy ratio: 8% samples have this site.
  • Cell specificity (0: conserved, 1: cell type specific): 0.800
  • Subunit: SA1,Rad21,SMC1,SA2,Mau2,SMC3
  • CTCF binding site: CTCF CTCF motif: True
  • Genomic location: TSS,TES
  • 3D genome
  • TAD boundary: Boundary
  • Chromatin hubs: Hub
  • Hi-C loops: True Hi-ChIP loops: True ChIA-PET loops: True
  • Compartment: 69% Hi-C samples shows Compartment A
  • Cis-regulatory elements
  • Enhancer (Fantom5): non-Enhancer
  • Super enhancer (SEdb): True
  • Chromatin annotation: "15_Quies": 70%, "7_Enh": 12%,
    Note: The percentage represent how many of the 127 Roadmap datasets show the indicated state (top 2).
  • Co-bound Transcriptional factors: PGR, XBP1, HNF1A, FOXA1, HLF, ATF3, NFIC, RUNX3, CBFB, PAX5, HDAC3, CDX2, TEAD1, BCLAF1, TRIM28, KLF6, ETV1, ESR1, OCA2, HNF1B, TP73, JUN, CTCF, TCF12, BAF155, PAX8, E2F1, TEAD4, TFAP2C, POU2F2, CHD8, MYCN, POU5F1, TOP2A, KDM4C, BRD3, ZBTB48, ERG, MYC, ONECUT1, RAD21, GRHL3, RXRA, GABPA, STAT3, NKX3-1, IKZF1, NR3C1, CEBPB, EZH2, GRHL2, ZHX2, SPI1, IRF1, GATA2, SIX2, HCFC1R1, RUNX1, SMC1A, ZFX, SMAD3, TET2, ZNF770, CREBBP, NOTCH1, RUNX2, ARNT, NRF1, FOS, MED1, ZEB1, TERF1, MYB, SCRT2, PIAS1, BCL11A, SP1, GSPT2, HNF4A, REST, ARID1A, ASH2L, SMC3, STAG1, STAG2, PPARG, TBL1X, MEIS1, SS18, WT1, MEF2C, CDK9, HOXB13, KDM1A, YY1, RELA, BRG1, SP140, HIF1A, GATA3, TAL1, MAX, ZNF143, TLE3, KLF4, KDM5B, NFKB1, MYOD1, ELF3, TBX21, PAX3-FOXO1, AR, NOTCH3, BRD4, SCRT1, MAZ
  • Target gene symbol (double-evidenced CRMs): VPS26C
  • Function elements
  • Human SNPs: .
  • Number of somatic mutations (coding): 0
  • Number of somatic mutations (non-coding): 7
  • Related genes and loops
  • Related gene: ENSG00000157538,
  • Related loop: chr21:17775000-17800000~~chr21:38225000-38250000, chr21:25200000-25225000~~chr21:38225000-38250000, chr21:25450000-25475000~~chr21:38225000-38250000, chr21:36500000-36525000~~chr21:38225000-38250000, chr21:37250000-37275000~~chr21:38225000-38250000, chr21:37325000-37350000~~chr21:38225000-38250000, chr21:38225000-38250000~~chr21:38325000-38350000, chr21:38225000-38250000~~chr21:38350000-38375000, chr21:38225000-38250000~~chr21:42225000-42250000, chr21:38233977-38237313~~chr21:38351817-38353514, chr21:38234388-38237054~~chr21:38351763-38353495,
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