Deatailed information for cohesin site CDBP00416040

Check detailed explainations here

  • Basic information
  • CohesinDB ID: CDBP00416040
  • Locus: chr21-28792476-28795005
  • Data sourse: ENCSR000BLD, GSE206145-GSE177045, ENCSR230ZWH, ENCSR000FAD, GSE72082, ENCSR000BSB, ENCSR000BLY, GSE105028, GSE103477, GSE111537, GSE131606, GSE108869, GSE25021, ENCSR000BUC, ENCSR917QNE, ENCSR000EFJ, ENCSR000BTU, GSE165895, ENCSR000EAC, GSE143937, ENCSR000BKV, GSE138405, GSE101921, GSE135093, GSE206145-NatGen2015, GSE112028, GSE138105, ENCSR703TNG, GSE106870, GSE116344, GSE145327, GSE94872, ENCSR000EEG, ENCSR879KXD, ENCSR000BLS, ENCSR000EHW, GSE206145, ENCSR000ECE, ENCSR000BMY, ENCSR000EHX, ENCSR635OSG, ENCSR767DFK, GSE97394, ENCSR217ELF, ENCSR000BTQ, ENCSR167MTG, GSE129526, ENCSR000HPG, ENCSR054FKH, ENCSR000EDE, GSE68388, GSE126990, GSE50893, ENCSR000ECS, GSE131577
  • Cell type: MDM, RH4, GM2610, SLK, CVB-hiPSC, GM19240, Liver, HuCC-T1, H9-hESC, RPE, GM2630, HMEC, Fibroblast, Ishikawa, GM12890, HeLa-S3, IMR-90, K-562, DKO, HFFc6, GM18526, H1-hESC, SNYDER, GM12878, GM12891, GM2588, SK-N-SH, GM19239, HeLa-Tet-On, THP-1, HUES64, MCF-7, GM12892, Hela-Kyoto, HCT-116, HL-60, Hep-G2, MCF-10A, A-549, HUVEC, HCAEC, GM19238, OCI-AML-3, GM18951
  • DNA Sequence of binding site: UCSC hg38
  • Cohesin category
  • Peak occupancy ratio: 33% samples have this site.
  • Cell specificity (0: conserved, 1: cell type specific): 0.511
  • Subunit: SA1,Rad21,SMC1,SA2,Mau2,SMC3
  • CTCF binding site: CTCF CTCF motif: True
  • Genomic location: Intergenic
  • 3D genome
  • TAD boundary: Boundary
  • Chromatin hubs: Hub
  • Hi-C loops: True Hi-ChIP loops: False ChIA-PET loops: True
  • Compartment: 68% Hi-C samples shows Compartment A
  • Cis-regulatory elements
  • Enhancer (Fantom5): non-Enhancer
  • Super enhancer (SEdb): True
  • Chromatin annotation: "15_Quies": 71%, "7_Enh": 17%,
    Note: The percentage represent how many of the 127 Roadmap datasets show the indicated state (top 2).
  • Co-bound Transcriptional factors: FOXO1, PGR, SOX2, XBP1, FOXA1, CHD7, PRDM1, PAX5, TP63, TEAD1, TRIM28, E2F5, ETV1, ESR1, HDAC8, USF2, CTCF, TCF12, BAF155, KLF1, EP300, PYGO2, CREB3, DDX20, TEAD4, ZNF175, EED, NANOG, POU2F2, CHD8, ZNF317, STAT1, SRF, HNF4G, ERG, HOXC5, MYC, SMARCA4, RAD21, GRHL3, GABPA, STAT3, NKX3-1, NFE2, ZNF639, NR3C1, CEBPB, ESRRA, STAT5B, KMT2A, ZBTB11, CREB1, EZH2, SPI1, IRF1, GATA2, ZNF644, NR2C2, RUNX1, GTF2A2, SMC1A, ZNF654, SMARCC1, TWIST1, ZBTB2, RUNX2, GATA4, ARNT, BACH1, ELK1, PBX4, DAXX, SOX11, PBX3, NR2C1, CHD1, CDK8, MED1, ZNF584, PIAS1, SMAD1, TAF7, TBX5, STAT5A, BCL11A, HNF4A, NR4A1, REST, ZBTB7A, ARID1A, ASH2L, FOXP1, PRDM6, SMC3, ILK, STAG2, STAG1, PTTG1, KLF13, FOXA2, MTA3, EBF1, FOXF1, HOXB13, ZNF589, RELA, ZNF148, BRG1, HIF1A, GATA3, TAL1, ZNF740, GATA1, TLE3, CEBPG, NR2F2, ZKSCAN8, ZNF83, TCF7L2, ZNF334, AR, PTRF, ZBTB40, YAP1, EGLN2, NOTCH3, BRD4, JUND, SCRT1, IRF9, MEF2D, ZNF24, ZNF395, FOSL2
  • Target gene symbol (double-evidenced CRMs): LTN1
  • Function elements
  • Human SNPs: .
  • Number of somatic mutations (coding): 0
  • Number of somatic mutations (non-coding): 8
  • Related genes and loops
  • Related gene: ENSG00000198862,
  • Related loop: chr21:28225000-28250000~~chr21:28800000-28825000, chr21:28334487-28338171~~chr21:28791723-28794424, chr21:28775000-28800000~~chr21:28925000-28950000, chr21:28775000-28800000~~chr21:28950000-28975000, chr21:28775000-28800000~~chr21:31075000-31100000, chr21:28775000-28800000~~chr21:43275000-43300000, chr21:28800000-28825000~~chr21:28900000-28925000, chr21:28800000-28825000~~chr21:28925000-28950000, chr21:28800000-28825000~~chr21:29675000-29700000,
eachgene