Deatailed information for cohesin site CDBP00420228

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  • Basic information
  • CohesinDB ID: CDBP00420228
  • Locus: chr21-42053659-42066910
  • Data sourse: ENCSR000BLD, GSE206145-GSE177045, ENCSR230ZWH, GSE72082, GSE116868, GSE105028, GSE103477, GSE111537, GSE131606, GSE25021, GSE115602, ENCSR000EFJ, ENCSR917QNE, GSE93080, ENCSR000DZP, ENCSR000EAC, GSE67783, ENCSR000BKV, GSE86191, GSE76893, GSE206145-NatGen2015, GSE120943, ENCSR703TNG, GSE98367, GSE206145, GSE85526, GSE62063, ENCSR000BMY, ENCSR635OSG, GSE55407, ENCSR000BTQ, GSE38395, ENCSR000HPG, GSE111913, GSE155324, ENCSR153HNT, GSE68388, GSE83726, GSE50893, GSE126755, GSE38411
  • Cell type: MDM, RH4, GM10847, GM2610, GM19240, OCI-AML-3, HSPC, Liver, HuCC-T1, B-cell, H9-hESC, GM2630, RPE, Fibroblast, HEKn, GM12890, hLCL, GM2255, IMR-90, BCBL-1, K-562, GM18486, DKO, GM18526, H1-hESC, SNYDER, Monocytes, MB157, Lymphoblast, GM12878, GM12891, GM2588, GM19239, RT-112, GM19193, THP-1, GM19099, Macrophage, MCF-7, GM12892, Ramos, HCT-116, GM19238, Neutrophil, GM18951
  • DNA Sequence of binding site: UCSC hg38
  • Cohesin category
  • Peak occupancy ratio: 31% samples have this site.
  • Cell specificity (0: conserved, 1: cell type specific): 0.500
  • Subunit: NIPBL,SA1,Rad21,SMC1,SA2,Mau2,SMC3
  • CTCF binding site: CTCF CTCF motif: False
  • Genomic location: TSS,TES
  • 3D genome
  • TAD boundary: Boundary
  • Chromatin hubs: Hub
  • Hi-C loops: True Hi-ChIP loops: False ChIA-PET loops: True
  • Compartment: 94% Hi-C samples shows Compartment A
  • Cis-regulatory elements
  • Enhancer (Fantom5): Enhancer
  • Super enhancer (SEdb): True
  • Chromatin annotation: "7_Enh": 27%, "14_ReprPCWk": 17%,
    Note: The percentage represent how many of the 127 Roadmap datasets show the indicated state (top 2).
  • Co-bound Transcriptional factors: FOXO1, NFIA, FOXA1, HDGF, THAP1, PAX5, SFPQ, TEAD1, ZNF121, LMO2, HDAC8, ARID5B, E4F1, PYGO2, E2F4, NR5A2, KMT2B, NANOG, ZNF263, POU5F1, TOP2A, BRD3, CTBP1, ERF, DUX4, STAT1, ERG, SMARCA4, RFX1, TOP1, FOXK2, RCOR1, NR2F6, CD74, CEBPB, CREB1, BMPR1A, ZHX2, GATA2, FLI1, HCFC1, MXI1, RELB, RUNX1, CEBPA, HDAC1, NKX2-2, TET2, TRIM22, SMARCC1, PRDM10, ZBTB2, ZXDC, ATF2, FOXM1, PML, PIAS1, SMAD1, NR1H2, EVI1, STAT5A, ARID2, RBM25, MBD2, NFATC3, CBFA2T2, MEF2B, CBX3, ZNF207, CREM, CHD2, SS18, NFATC1, ZSCAN16, WT1, MEF2C, JUNB, NEUROD1, ZFP36, TCF4, BATF, SPIB, PLAG1, KLF4, BCL11B, ZKSCAN8, MED, EGR2, ELF3, RXR, EGLN2, HSF1, NCOR1, SCRT1, ILF3, ZNF316, FOSL1, XBP1, PBX2, ATF3, RUNX3, WDHD1, CBFB, TP63, MITF, BACH2, JMJD1C, INTS11, MAF, ELF1, ZNF573, RBM39, SNAI2, JUN, CTCF, LMO1, MNT, DPF2, IRF4, MED12, PDX1, TFAP2C, RBPJ, MTA2, ZNF317, ZBTB48, ZBTB17, UTX, SRF, DDX5, NBN, CHD4, PBX1, ONECUT1, KDM4A, RXRA, BATF3, NKX3-1, PRDM14, LEF1, TERF2, VDR, NR3C1, ESRRA, STAT5B, KMT2A, TBL1XR1, GRHL2, ZNF565, ZNF146, SMARCA5, CTNNB1, EZH2phosphoT487, LDB1, ZNF770, ZMIZ1, DAXX, ARNT, NFIB, BACH1, PRDM9, HMBOX1, ZEB2, PBX3, MAFB, ETV6, DIDO1, KLF9, USF1, SP1, BCL11A, TFAP2A, ATF7, ASH2L, CTBP2, SMC3, STAG2, STAG1, MLLT1, TRP47, AGO1, MTA3, EBF1, MEIS1, ESR2, BCL3, KDM1A, BRG1, ZIC2, GATA3, TAL1, NRIP1, ZNF143, MTA1, CBX2, TP53, ZNF334, NFKB1, BRD2, TBX21, EGR1, RB1, RNF2, IKZF2, BRD4, JUND, PGR, CBX5, SOX2, UBTF, BMI1, CHD7, ZNF444, SMARCE1, KLF6, NFE2L2, ZNF217, ESR1, SAP30, TP73, SND1, KLF1, SOX9, SOX4, E2F6, TRIM24, GTF2F1, GLIS1, POU2F2, ZSCAN5D, ZSCAN5A, ERG2, TBP, HOXC5, OGG1, ETS1, MYC, ARID1B, NKX2-1, GABPA, STAT3, IKZF1, DNMT3B, SRSF3, EZH2, SPI1, HDAC2, INTS13, GATAD2B, NCOA2, NFYB, AHRR, BCL6, SIN3A, ERG3, MEF2A, CREBBP, RARA, ZNF384, SMAD4, CBFA2T3, CDK8, SNRNP70, CSNK2A1, ZEB1, ZMYM3, NCOA1, SREBF2, MAFK, HNF4A, REST, ARID1A, HNRNPLL, BCOR, FOXP1, AATF, NCOR2, PPARG, GTF2B, ZNF823, TCF7, ZFP14, RELA, TARDBP, SKIL, MAX, NR2F1, TCF7L2, KDM5B, PKNOX1, AR, PAX3-FOXO1, ZBTB16, YAP1, HEXIM1, AHR, FOSL2, MBD3, E2F7, HMGN3, MEIS2, SUZ12, ZFHX2, LYL1, NFIC, PRDM1, MECOM, HDAC3, CDX2, KLF5, TRIM28, BCLAF1, ETV1, MLL, HNF1B, USF2, TCF12, EP300, BAF155, GATA6, SOX6, RAD51, ZNF512B, E2F1, SMC1, TEAD4, ZNF175, EED, CHD8, BRD1, MYCN, CDK7, ID3, RUNX1T1, ARID3A, ASCL1, ZNF341, EOMES, RAD21, GRHL3, PROX1, APC, XRCC5, NFE2, ZNF639, TRPS1, HES1, EHF, IRF1, NAB2, MRTFB, ATF1, PTBP1, SMC1A, CBX1, SIRT6, ZFX, ZNF534, SMAD3, CBX8, NOTCH1, RUNX2, SMAD2, GATA4, GR, PBX4, NRF1, FOS, CHD1, SUPT5H, MED1, CEBPD, MYB, SCRT2, L3MBTL2, KLF16, NIPBL, ZBTB7A, CCNT2, POU2F3, PHIP, TCF3, SKI, FOXA2, RBBP5, ZBED1, FOXF1, ZBTB33, CDK9, HOXB13, YY1, SP140, HIF1A, BHLHE22, ZNF449, GATA1, TLE3, NCOA3, NR2F2, ZNF687, BHLHE40, TAF1, ZBTB40, CLOCK, MAZ, ZNF24
  • Target gene symbol (double-evidenced CRMs): PKNOX1,ZBTB21,SLC37A1,PRDM15,UMODL1
  • Function elements
  • Human SNPs: Monocyte_count
  • Number of somatic mutations (coding): 30
  • Number of somatic mutations (non-coding): 55
  • Related genes and loops
  • Related gene: ENSG00000141956, ENSG00000173276, ENSG00000177398, ENSG00000160190, ENSG00000160199,
  • Related loop: chr21:41600000-41625000~~chr21:42050000-42075000, chr21:41609800-41611357~~chr21:42049201-42050517, chr21:41850000-41875000~~chr21:42050000-42075000, chr21:42008744-42011714~~chr21:42060877-42064978, chr21:42025000-42050000~~chr21:42775000-42800000, chr21:42050000-42075000~~chr21:42525000-42550000, chr21:42050000-42075000~~chr21:42975000-43000000, chr21:42050000-42075000~~chr21:43350000-43375000, chr21:42050000-42075000~~chr21:44250000-44275000, chr21:42060877-42064978~~chr21:42106670-42109262, chr21:42062098-42064822~~chr21:42076418-42078634,
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