Deatailed information for cohesin site CDBP00416086

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  • Basic information
  • CohesinDB ID: CDBP00416086
  • Locus: chr21-28991642-28993980
  • Data sourse: ENCSR000BLD, GSE206145-GSE177045, GSE104888, ENCSR230ZWH, ENCSR000FAD, GSE72082, ENCSR000BSB, GSE126634, GSE116868, ENCSR000EGW, ENCSR000BLY, ENCSR404BPV, GSE105028, GSE121355, GSE111537, GSE131606, GSE108869, ENCSR000EDW, GSE25021, ENCSR917QNE, ENCSR000EFJ, ENCSR000BTU, GSE165895, ENCSR000DZP, ENCSR000EAC, GSE67783, ENCSR000BKV, GSE122299, GSE138405, GSE86191, GSE93080, GSE76893, GSE101921, GSE51234, GSE206145-NatGen2015, GSE120943, ENCSR198ZYJ, GSE138105, GSE130135, ENCSR703TNG, GSE116344, ENCSR000EEG, ENCSR338DUC, GSE98367, ENCSR879KXD, ENCSR000BLS, ENCSR000EHW, GSE206145, ENCSR000ECE, ENCSR247LSH, ENCSR000BMY, ENCSR000EHX, ENCSR635OSG, GSE62063, GSE38395, ENCSR167MTG, GSE110061, GSE129526, ENCSR000HPG, GSE111913, GSE155324, ENCSR054FKH, ENCSR000EDE, ENCSR153HNT, GSE68388, GSE83726, GSE126990, GSE50893, GSE126755, ENCSR000ECS, GSE64758, GSE38411
  • Cell type: RH4, GM10847, GM2610, SLK, GM19240, OCI-AML-3, HSPC, Liver, GP5d, HuCC-T1, H9-hESC, B-cell, GM2630, RPE, Fibroblast, Ishikawa, HeLa-S3, hLCL, GM2255, IMR-90, BCBL-1, K-562, GM18486, HFFc6, H1-hESC, SNYDER, Monocytes, MB157, Lymphoblast, GM12878, GM12891, GM2588, SK-N-SH, GM19239, RT-112, Macrophage, Ramos, MCF-7, GM12892, Hela-Kyoto, HCT-116, HEK293T, Hep-G2, Neurons-H1, A-549, HCAEC, GM19238, Neutrophil, HAP1
  • 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): 0.444
  • 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: 68% Hi-C samples shows Compartment A
  • Cis-regulatory elements
  • Enhancer (Fantom5): non-Enhancer
  • Super enhancer (SEdb): False
  • Chromatin annotation: "2_TssAFlnk": 30%, "1_TssA": 23%,
    Note: The percentage represent how many of the 127 Roadmap datasets show the indicated state (top 2).
  • Co-bound Transcriptional factors: FOXO1, NFIA, NME2, FOXA1, RXRB, MLL4, KDM3A, HDGF, MEN1, THAP1, ZBTB44, IKZF3, MORC2, PAX5, SFPQ, TEAD1, ZNF121, LMO2, OCA2, MED26, PITX3, HDAC8, ZNF561, ZNF577, ARID5B, E4F1, ZNF75A, ZNF157, SOX5, DEK, E2F4, ZNF410, ZNF528, KMT2B, GATAD2A, NANOG, ZNF263, POU5F1, BRD3, CTBP1, ZMYND11, ERF, DUX4, STAT1, SAP130, ERG, ZBTB21, ZBTB8A, EZH1, SMARCA4, TOP1, FOXK2, UBN1, ZNF398, RCOR1, NR2F6, NFRKB, CEBPB, CREB1, DDX21, BMPR1A, GABPB1, ZHX2, ELF4, MIXL1, KLF17, GATA2, MXD3, FLI1, DRAP1, MXI1, NR2C2, HCFC1, ZNF785, RELB, EP400, RUVBL2, RUNX1, HDAC1, NKX2-2, CEBPA, CRY1, IRF3, REPIN1, TET2, TBX3, SP5, TRIM22, SMARCC1, PRDM10, ZNF549, ZBTB2, TFDP1, ZBTB10, ELK1, ATF2, FOXM1, SP2, SMARCB1, GMEB1, TERF1, PML, PIAS1, SMAD1, NR1H2, C11orf30, EVI1, STAT5A, GSPT2, ARID2, IKZF5, OVOL3, RBM25, ZNF605, AFF1, MBD2, ELL2, ETV4, NFATC3, MEF2B, ZNF207, CBX3, CREM, CHD2, NFATC1, PAF1, ZSCAN16, WT1, MEF2C, CREB3L1, NEUROD1, JUNB, TCF4, ZFP36, BATF, SPIB, PLAG1, ZFP69B, BCL11B, KLF4, ZBTB6, MED, EGR2, ELF3, ARID4B, RXR, EGLN2, ZNF366, ZBTB26, HSF1, NCOR1, SCRT1, ILF3, FOSL1, ZNF660, XBP1, ZNF101, KDM4B, PBX2, HNRNPK, THRB, ATF3, ZC3H8, ZFP64, RUNX3, CBFB, ZNF273, ZSCAN4, MITF, ZNF467, JMJD1C, MAF, INTS11, ELF1, ZNF573, RBM39, KLF10, SMAD5, CTCF, TAF3, JUN, ZBTB20, MNT, LMO1, DPF2, RYBP, SIX5, IRF4, DDX20, ZNF350, ZNF280A, PDX1, TFAP2C, MLX, RBPJ, ZSCAN21, ZBTB17, ZBTB48, ZNF317, MTA2, NONO, SRF, NBN, PBX1, ZNF329, KDM4A, HOMEZ, ZNF2, FOXP2, TSHZ1, RXRA, NKX3-1, MIER3, VDR, NR3C1, ESRRA, STAT5B, KMT2A, ZBTB11, FOXK1, TBL1XR1, KLF8, GRHL2, EBF3, KDM5A, ZNF146, NFIL3, THAP11, LDB1, AFF4, SOX13, POU4F2, ZNF770, ZNF513, ZMIZ1, ZNF18, CEBPZ, SP3, ARNT, NFIB, ZNF48, PRDM9, ZEB2, NFYA, ETV6, NCAPH2, ZNF10, PBX3, HMGXB4, MAFB, TEAD3, DIDO1, ZXDB, ZNF680, U2AF1, TAF7, KLF9, TBX5, USF1, BCL11A, TFAP2A, SP1, ATF7, ASH2L, CTBP2, GLIS2, PRDM6, ZNF623, SMC3, MLLT1, STAG1, ZNF394, AGO1, MTA3, EBF1, MEIS1, MAFF, ZNF580, KLF7, ZKSCAN1, KDM1A, BCL3, ZIC2, PCGF1, GATA3, KLF15, TAL1, ZNF143, AGO2, ZNF768, TP53, ZNF334, ZSCAN22, NFKB1, BRD2, PHF5A, KAT8, ARRB1, TBX21, EGR1, RB1, TFIIIC, RNF2, IKZF2, BRD4, JUND, CUX1, ZSCAN23, PGR, SOX2, SNAPC4, PATZ1, LEO1, UBTF, TFAP4, SIN3B, ZNF444, ATF4, MXD4, ZNF189, RLF, KLF6, NFE2L2, SAP30, ESR1, ZNF217, ZNF524, SND1, KLF1, ZNF695, ZNF260, SOX9, SOX4, E2F6, TRIM24, RFX5, PRKDC, ZNF808, GTF2F1, GLIS1, POU2F2, ZNF778, KDM4C, ZBTB1, ASH1L, ZSCAN5A, ELK4, ERG2, SP4, TBP, HNF4G, HOXC5, OGG1, SMARCC2, ETS1, MYC, KLF12, NKX2-1, GABPA, MCRS1, STAT3, IKZF1, INO80, EZH2, ZNF652, MRTFA, PHF8, SPI1, ZNF202, PCBP1, HDAC2, RBP2, INTS13, GATAD2B, TAF9B, ZNF490, ZNF76, ZNF554, NFYB, ETV5, BCL6, SIN3A, ZBTB12, ERG3, MEF2A, RARA, NFYC, ZNF35, ZNF384, CREBBP, TAF15, SMAD4, ZNF518A, CDK8, ZEB1, SPDEF, NCOA1, SREBF2, RBM22, MAFK, NR4A1, HNF4A, REST, ARID1A, ZHX1, HNRNPLL, BCOR, FOXP1, AATF, ZNF34, CXXC4, PPARG, TBL1X, ZNF716, ZNF692, GTF2B, ZNF30, JDP2, ZNF574, TCF7, YY2, RELA, TARDBP, SKIL, MAX, ZNF592, GFI1B, NR2F1, TCF7L2, KDM5B, PKNOX1, MYOD1, T, AR, KMT2D, YAP1, ZNF324, HEXIM1, ZNF280D, DMAP1, AHR, FOSL2, ZNF391, E2F7, HMGN3, MEIS2, SUZ12, RBFOX2, ZFHX2, SFMBT1, INSM2, CTCFL, PRDM1, KLF14, MECOM, CDX2, ZNF629, KLF5, BCLAF1, ZNF557, ETV1, TRIM28, RCOR2, HNF1B, USF2, TCF12, EP300, BAF155, GATA6, ZNF302, PRDM4, GLI4, SOX6, RAD51, E2F1, SMC1, TEAD4, FOXA3, ZNF175, EED, CHD8, BRD1, MYCN, RUNX1T1, CDK7, ID3, MLLT3, GATAD1, ARID3A, ASCL1, USP7, ZNF341, ZNF84, RAD21, GRHL3, APC, XRCC5, ZNF614, NFE2, ZNF639, ARNTL, ZNF501, ZNF750, ZNF85, FEZF1, TRPS1, HBP1, EHF, TFE3, IRF1, ZNF664, ZNF681, SREBF1, ZGPAT, MRTFB, MYF5, ATF1, PTBP1, ZNF45A, SMC1A, CBX1, SIRT6, ZNF335, ZFX, FIP1L1, SMAD3, PCBP2, IRF2, NOTCH1, RUNX2, CDK6, GATA4, OSR2, ZNF184, ZSCAN30, NRF1, PBX4, NR2C1, CHD1, SUPT5H, FOS, TGIF2, MED1, KDM6B, MYB, SCRT2, CEBPD, ZNF558, VEZF1, ZNF3, L3MBTL2, SETDB1, KLF16, NIPBL, PHF20, ZBTB7A, PHIP, TCF3, SKI, NELFA, KLF13, FOXA2, RBBP5, E2F8, ZNF600, MIER2, ZBED1, ZBTB33, CDK9, HOXB13, ZNF589, YY1, ZNF148, ASXL1, ZNF610, SP140, BRCA1, HIF1A, OTX2, GATA1, HAND2, TLE3, CEBPG, SP7, NCOA3, NR2F2, ZNF213, ZNF843, NFKBIZ, BHLHE40, TAF1, ZBTB40, ZBTB42, NOTCH3, CLOCK, MAZ, ZNF24
  • Target gene symbol (double-evidenced CRMs): RWDD2B,LTN1,USP16
  • Function elements
  • Human SNPs: .
  • Number of somatic mutations (coding): 240
  • Number of somatic mutations (non-coding): 81
  • Related genes and loops
  • Related gene: ENSG00000198862, ENSG00000156253, ENSG00000156256,
  • Related loop: chr21:25350000-25375000~~chr21:28975000-29000000, chr21:25725000-25750000~~chr21:28975000-29000000, chr21:28991455-28993844~~chr21:29023842-29026326, chr21:28991517-28993800~~chr21:29024190-29026094, chr21:28991528-28993711~~chr21:29024204-29026148, chr21:28991579-28993764~~chr21:29023633-29025850, chr21:28991614-28993817~~chr21:29023881-29026318, chr21:28991626-28993358~~chr21:29018475-29019750, chr21:28991807-28993775~~chr21:29023855-29025783,
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