chr3:12,768,768–12,769,541

chr3 : 12,768,768 – 12,769,541

773 bp 69 TFs 7 linked genes

This 773 bp open chromatin element is linked to 7 target genes and is bound by 69 transcription factors.

Linked Genes

7 genes

Gene	Expression	Dist. to TSS	Distance	Link type
TMEM40		at TSS	At TSS	Proximity
CAND2		27.6 kb	Distal	Multiome
RPL32		72.5 kb	Distal	Multiome
RAF1		104.9 kb	Distal	Multiome
MKRN2		212.0 kb	Distal	Multiome
MKRN2OS		223.5 kb	Distal	Multiome
TSEN2		284.5 kb	Distal	Multiome

Chromatin Accessibility

Genome Browser

Genomic view centred on this element. Tracks include ATAC-seq accessibility, RNA-seq expression, TF binding peaks, and element-to-gene loop arcs across the ESC → DE time course.

Transcription factors with ChIP-seq peak overlap or TOBIAS motif footprint evidence at this element.

TF Binding

69 transcription factors

Ahr::Arnt 1 dataset

Motif DE_24h DE_24h-AhrArnt_MA0006.2 5 bp overlap

BCL11A 1 dataset

ChIP MCF-10A ERP003925.BCL11A.MCF-10A 225 bp overlap

ChIP K-562 ENCSR808AKZ.BCOR.K-562 148 bp overlap

ChIP MCF-10A ERP003925.BRD4.MCF-10A 376 bp overlap

ChIP ME-1 GSE46044.CBFB.ME-1 394 bp overlap

ChIP HCT-116 GSE72622.CDK9.HCT-116 171 bp overlap

ChIP adult-duodenal-cell GSE115314.CDX2.adult-duodenal-cell 202 bp overlap

CTCF 50 datasets

ChIP A-549 ENCSR000DNA.CTCF.A-549 109 bp overlap

ChIP DOHH2 ENCFF637WNW 244 bp overlap

ChIP DOHH2 ENCSR084RDK.CTCF.DOHH2 108 bp overlap

ChIP GM23338 ENCFF531QOI 292 bp overlap

ChIP GM23338 ENCFF772DML 172 bp overlap

ChIP H1 ENCFF764RHO 182 bp overlap

ChIP HCT-116 GSE131606.CTCF.HCT-116 216 bp overlap

ChIP HCT-116 ENCSR000BSE.CTCF.HCT-116 146 bp overlap

ChIP HeLa GSE126990.CTCF.HeLa 86 bp overlap

ChIP HeLa-Kyoto GSE138405.CTCF.HeLa-Kyoto 86 bp overlap

ChIP HeLa-S3_biotin GSE108869.CTCF.HeLa-S3_biotin 135 bp overlap

ChIP ID00014 GSE76922.CTCF.ID00014 185 bp overlap

ChIP K-562 ENCSR000DMA.CTCF.K-562 135 bp overlap

ChIP K-562 ENCSR000EGM.CTCF.K-562 118 bp overlap

ChIP K-562 ENCSR000BPJ.CTCF.K-562 115 bp overlap

ChIP K-562_14376 GSE131349.CTCF.K-562_14376 77 bp overlap

ChIP K-562_MonoC GSE137216.CTCF.K-562_MonoC 285 bp overlap

ChIP K-562_MonoN GSE137216.CTCF.K-562_MonoN 123 bp overlap

ChIP K-562_RF2-insertion GSE140868.CTCF.K-562_RF2-insertion 81 bp overlap

ChIP K-562_RabbitC GSE137216.CTCF.K-562_RabbitC 277 bp overlap

ChIP K562 ENCFF082GOI 159 bp overlap

ChIP K562 ENCFF400DFR 188 bp overlap

ChIP MCF-7 ENCFF162GNE 183 bp overlap

ChIP MCF-7 ENCFF198DQX 184 bp overlap

ChIP MCF-7 ENCFF414SZG 171 bp overlap

ChIP MCF-7 ENCFF424NQR 167 bp overlap

ChIP MCF-7 ENCFF494VXA 182 bp overlap

ChIP MCF-7 ENCFF844STM 191 bp overlap

ChIP MCF-7 ENCFF954TUV 203 bp overlap

ChIP MCF-7 ENCSR560BUE.CTCF.MCF-7 188 bp overlap

ChIP MCF-7 ENCSR000DMR.CTCF.MCF-7 142 bp overlap

ChIP MCF-7 GSE137216.CTCF.MCF-7 139 bp overlap

ChIP MCF-7 ENCSR000AHD.CTCF.MCF-7 110 bp overlap

ChIP MCF-7 GSE70764.CTCF.MCF-7 94 bp overlap

ChIP MCF-7L_t0 GSE108787.CTCF.MCF-7L_t0 242 bp overlap

ChIP MCF-7L_t1 GSE108787.CTCF.MCF-7L_t1 150 bp overlap

ChIP MCF-7L_t24 GSE108787.CTCF.MCF-7L_t24 208 bp overlap

ChIP MCF-7L_t4 GSE108787.CTCF.MCF-7L_t4 143 bp overlap

ChIP MCF-7_E2 ERP000380.CTCF.MCF-7_E2 144 bp overlap

ChIP OCI-LY7 ENCFF086AXQ 309 bp overlap

ChIP OVCAR-8 GSE70764.CTCF.OVCAR-8 158 bp overlap

ChIP RWPE2 ENCFF911IEE 440 bp overlap

ChIP RWPE2 ENCFF911IEE 240 bp overlap

ChIP T-47D_NaCl-isotonic GSE111923.CTCF.T-47D_NaCl-isotonic 176 bp overlap

ChIP T-47D_triptolide GSE111923.CTCF.T-47D_triptolide 306 bp overlap

ChIP delta-47 GSE70764.CTCF.delta-47 169 bp overlap

ChIP endodermal cell ENCFF471YCZ 269 bp overlap

ChIP heart ENCSR232OFD.CTCF.heart 133 bp overlap

ChIP heart_left-ventricle ENCSR544APK.CTCF.heart_left-ventricle 284 bp overlap

ChIP left ventricle myocardium inferior ENCFF161DPW 300 bp overlap

CTCFL 6 datasets

ChIP K-562 GSE70764.CTCFL.K-562 146 bp overlap

ChIP K-562 ENCSR000BNK.CTCFL.K-562 134 bp overlap

ChIP K562 ENCFF883NXC 163 bp overlap

ChIP Kelly_shLUC-res GSE115248.CTCFL.Kelly_shLUC-res 156 bp overlap

ChIP OVCAR-8 GSE70764.CTCFL.OVCAR-8 201 bp overlap

ChIP delta-47 GSE70764.CTCFL.delta-47 183 bp overlap

Cebpa 1 dataset

ChIP BLaER1 ENCFF364PUR 236 bp overlap

E2F6 9 datasets

ChIP H1 ENCFF785DWK 451 bp overlap

ChIP K-562 ENCSR000BLI.E2F6.K-562 202 bp overlap

ChIP K-562 ENCSR000EWJ.E2F6.K-562 276 bp overlap

ChIP K-562 ENCSR000BLI.E2F6.K-562 100 bp overlap

ChIP K-562 ENCSR000BLI.E2F6.K-562 108 bp overlap

ChIP K562 ENCFF136LTS 325 bp overlap

ChIP K562 ENCFF136LTS 287 bp overlap

ChIP WA01 ENCSR000BSI.E2F6.WA01 142 bp overlap

ChIP WA01 ENCSR000BSI.E2F6.WA01 135 bp overlap

Motif DE_24h DE_24h-ELF2_MA1483.3 10 bp overlap

Motif DE_24h DE_24h-ELF4_MA0641.1 12 bp overlap

ChIP MCF-7 GSE23730.ERG.MCF-7 120 bp overlap

ChIP cardiomyocyte_D0 GSE129986.ETS1.cardiomyocyte_D0 250 bp overlap

EZH2_phosphoT487 1 dataset

ChIP neuron_bipolar_doxy_4d ENCSR886KKK.EZH2_phosphoT487.neuron_bipolar_doxy_4d 443 bp overlap

ChIP TSU-1621MT GSE60477.FLI1.TSU-1621MT 241 bp overlap

FOXA2 1 dataset

ChIP BJ1-hTERT_FoxHnf1aCoExp GSE90454.FOXA2.BJ1-hTERT_FoxHnf1aCoExp 308 bp overlap

HDAC2 1 dataset

ChIP WA01 ENCSR000AVB.HDAC2.WA01 145 bp overlap

HEXIM1 1 dataset

ChIP HCT-116 GSE72622.HEXIM1.HCT-116 237 bp overlap

HMGN3 3 datasets

ChIP K-562 ENCSR000DOB.HMGN3.K-562 207 bp overlap

ChIP K562 ENCFF083BIJ 465 bp overlap

ChIP K562 ENCFF083BIJ 367 bp overlap

ChIP K-562 ENCSR005NMT.ID3.K-562 103 bp overlap

L3MBTL2 2 datasets

ChIP K-562 ENCSR530XQI.L3MBTL2.K-562 547 bp overlap

ChIP K562 ENCFF320EQC 414 bp overlap

ChIP THP-1_macrophage_PMA GSE96800.MAF1.THP-1_macrophage_PMA 163 bp overlap

ChIP H1 ENCFF914VQY 357 bp overlap

ChIP K562 ENCFF524IJO 313 bp overlap

ChIP K-562 ENCSR710WLO.MGA.K-562 414 bp overlap

ChIP K562 ENCFF140CEX 566 bp overlap

ChIP K562 ENCFF140CEX 364 bp overlap

Motif DE_24h DE_24h-MTF1_MA0863.1 14 bp overlap

NELFE 1 dataset

ChIP K-562_HS GSE112379.NELFE.K-562_HS 202 bp overlap

NFYB 2 datasets

ChIP GM12878 ENCFF474DNH 87 bp overlap

ChIP HepG2 ENCFF174VYX 100 bp overlap

NKX2-3 1 dataset

Motif DE_24h DE_24h-NKX2-3_MA0672.2 8 bp overlap

NKX2-4 1 dataset

Motif DE_24h DE_24h-NKX2-4_MA2003.2 8 bp overlap

NKX2-8 1 dataset

Motif DE_24h DE_24h-NKX2-8_MA0673.2 8 bp overlap

NR2F2 2 datasets

ChIP MCF-7_E2 GSE132432.NR2F2.MCF-7_E2 356 bp overlap

ChIP MCF-7_Veh GSE132432.NR2F2.MCF-7_Veh 675 bp overlap

Nkx2-1 1 dataset

Motif DE_24h DE_24h-Nkx2-1_MA1994.2 7 bp overlap

ChIP HEK293 GSE89017.OGG1.HEK293 350 bp overlap

ChIP GM12878 ENCSR000BHD.PAX5.GM12878 119 bp overlap

PCBP1 2 datasets

ChIP Hep-G2 GSE120104.PCBP1.Hep-G2 188 bp overlap

ChIP Hep-G2 ENCSR872EVQ.PCBP1.Hep-G2 184 bp overlap

POLR2G 3 datasets

ChIP K562 ENCFF047BLG 590 bp overlap

ChIP K562 ENCFF047BLG 234 bp overlap

ChIP K562 ENCFF648YPL 234 bp overlap

POU5F1 1 dataset

ChIP DE_D1 DED1-OCT4_Batch_II 444 bp overlap

POU5F1_M 1 dataset

ChIP DE_D1 DED1-OCT4-M_Batch_II 408 bp overlap

RAD21 10 datasets

ChIP HCT-116 GSE131606.RAD21.HCT-116 191 bp overlap

ChIP HCT-116 ENCSR000BSB.RAD21.HCT-116 163 bp overlap

ChIP HCT116 ENCFF568PEO 218 bp overlap

ChIP K-562 ENCSR000BKV.RAD21.K-562 108 bp overlap

ChIP K-562_RF2-insertion GSE140868.RAD21.K-562_RF2-insertion 103 bp overlap

ChIP K562 ENCFF634XYR 266 bp overlap

ChIP MCF-7 ENCFF694KOM 256 bp overlap

ChIP MCF-7 ENCFF724VCQ 186 bp overlap

ChIP MCF-7 ENCSR703TNG.RAD21.MCF-7 175 bp overlap

ChIP MCF-7_E2 ERP000209.RAD21.MCF-7_E2 109 bp overlap

RBFOX2 2 datasets

ChIP K-562 ENCSR822LBD.RBFOX2.K-562 198 bp overlap

ChIP K-562 GSE120104.RBFOX2.K-562 192 bp overlap

REST 2 datasets

ChIP H1 ENCFF429RUE 245 bp overlap

ChIP WA01 ENCSR000BHM.REST.WA01 170 bp overlap

ChIP HCC70 GSE126380.RORC.HCC70 292 bp overlap

ChIP TSU-1621MT GSE60477.RXR.TSU-1621MT 207 bp overlap

SIN3A 2 datasets

ChIP H1 ENCFF042ZSL 375 bp overlap

ChIP Hep-G2 ENCSR000BGL.SIN3A.Hep-G2 104 bp overlap

SMARCA4 1 dataset

ChIP K-562 ENCSR643VTW.SMARCA4.K-562 336 bp overlap

ChIP DKO GSE131606.SMC1.DKO 195 bp overlap

SOX17_M 1 dataset

ChIP DE_D2 DED2-SOX17-M_Batch_II 292 bp overlap

Motif DE_24h DE_24h-SP8_MA0747.2 11 bp overlap

SPDEF 1 dataset

Motif DE_24h DE_24h-SPDEF_MA0686.2 10 bp overlap

SREBP2 2 datasets

ChIP HCC70 GSE126380.SREBP2.HCC70 554 bp overlap

ChIP HCC70_XY018 GSE126380.SREBP2.HCC70_XY018 217 bp overlap

STAG1 2 datasets

ChIP MCF-7 ERP000209.STAG1.MCF-7 143 bp overlap

ChIP MCF-7_E2 ERP000209.STAG1.MCF-7_E2 119 bp overlap

STAT3 1 dataset

ChIP WA01 ERP004237.STAT3.WA01 366 bp overlap

TARDBP 1 dataset

ChIP K-562 GSE120104.TARDBP.K-562 169 bp overlap

TFIIIC 1 dataset

ChIP HEK293 GSE119418.TFIIIC.HEK293 351 bp overlap

TRIM24 1 dataset

ChIP LNCaP-abl_ETOH GSE69331.TRIM24.LNCaP-abl_ETOH 245 bp overlap

TRIM25 1 dataset

ChIP BT-549 GSE79588.TRIM25.BT-549 336 bp overlap

TRIM28 1 dataset

ChIP WIBR3_NAIVE GSE84382.TRIM28.WIBR3_NAIVE 158 bp overlap

ChIP Hep-G2 ENCSR000BGM.USF1.Hep-G2 99 bp overlap

VEZF1 2 datasets

ChIP K-562 ENCSR189YMA.VEZF1.K-562 184 bp overlap

ChIP K562 ENCFF053XDV 543 bp overlap

ChIP SMMC-7721 GSE126982.WDR5.SMMC-7721 514 bp overlap

XRCC5 1 dataset

ChIP K-562 GSE120104.XRCC5.K-562 147 bp overlap

ZBTB11 1 dataset

Motif DE_24h DE_24h-ZBTB11_MA2329.1 9 bp overlap

ZBTB2 1 dataset

ChIP GM12878 GSE97661.ZBTB2.GM12878 94 bp overlap

ZBTB7A 2 datasets

Motif DE_24h DE_24h-ZBTB7A_MA0750.3 9 bp overlap

ChIP K-562 ENCSR000BME.ZBTB7A.K-562 99 bp overlap

ZNF121 5 datasets

ChIP HEK293 ENCFF839FUF 186 bp overlap

ChIP HEK293 ENCSR224QDY.ZNF121.HEK293 131 bp overlap

ChIP HEK293 GSE76494.ZNF121.HEK293 70 bp overlap

ChIP K562 ENCFF314GND 124 bp overlap

ChIP WTC11 ENCFF291API 115 bp overlap

ZNF682 1 dataset

Motif DE_24h DE_24h-ZNF682_MA1599.2 11 bp overlap

Zbtb2 1 dataset

Motif DE_24h DE_24h-Zbtb2_MA2340.1 10 bp overlap