chr3 : 128,653,061 – 128,654,283
1,222 bp 55 TFs 4 linked genes
This 1.2 kb open chromatin element is linked to 4 target genes and is bound by 55 transcription factors.
Linked Genes
4 genes
Distance
Link type
Gene↕ Expression Dist. to TSS↑ Distance↕ Link type↕
RPN1 2.2 kb Proximal Proximity
RAB7A 72.3 kb Distal Multiome
ENSG00000290241 196.7 kb Distal Multiome
ACAD9 225.8 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.

View limited to ±500 kb around this element.
For the full data, please see the UCSC track linked below.
chr3:128,648,061 – 128,659,283
This element Other elements Gene links ATAC-seq RNA-seq

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

TF Binding
55 transcription factors
Source
Cell type
Ahr::Arnt 3 datasets
Motif DE_12h DE_12h-AhrArnt_MA0006.2 5 bp overlap
Motif DE_24h DE_24h-AhrArnt_MA0006.2 5 bp overlap
Motif DE_36h DE_36h-AhrArnt_MA0006.2 5 bp overlap
BHLHE22 2 datasets
Motif DE_12h DE_12h-BHLHE22_MA1635.2 6 bp overlap
Motif DE_24h DE_24h-BHLHE22_MA1635.2 6 bp overlap
CTCF 99 datasets
ChIP B cell ENCFF506FKC 481 bp overlap
ChIP BJ ENCFF434HEC 311 bp overlap
ChIP CD14-positive monocyte ENCFF590KQU 491 bp overlap
ChIP CD4-positive, alpha-beta T cell ENCFF277LDE 631 bp overlap
Motif DE_12h DE_12h-CTCF_MA0139.2 15 bp overlap
Motif DE_12h DE_12h-CTCF_MA1930.2 33 bp overlap
Motif DE_24h DE_24h-CTCF_MA0139.2 15 bp overlap
Motif DE_24h DE_24h-CTCF_MA1930.2 33 bp overlap
ChIP GM12865 ENCFF067GFI 257 bp overlap
ChIP GM12867 ENCSR000DRH.CTCF.GM12867 98 bp overlap
ChIP GM12869 ENCSR000DRJ.CTCF.GM12869 153 bp overlap
ChIP GM20000 ENCFF217HWJ 165 bp overlap
ChIP GM20000 ENCFF218HKS 165 bp overlap
ChIP GM23338 ENCFF531QOI 425 bp overlap
ChIP GM23338 ENCFF772DML 167 bp overlap
ChIP H1 ENCFF230QSV 165 bp overlap
ChIP H1 ENCFF764RHO 277 bp overlap
ChIP HFF-Myc ENCFF680WYR 377 bp overlap
ChIP HL-60 ENCSR000DUP.CTCF.HL-60 155 bp overlap
ChIP MCF-7 ENCFF139NQI 277 bp overlap
ChIP MCF-7 ENCFF162GNE 245 bp overlap
ChIP MCF-7 ENCFF198DQX 231 bp overlap
ChIP MCF-7 ENCFF210JUZ 421 bp overlap
ChIP MCF-7 ENCFF414SZG 139 bp overlap
ChIP MCF-7 ENCFF424NQR 191 bp overlap
ChIP MCF-7 ENCFF494VXA 105 bp overlap
ChIP MCF-7 ENCFF844STM 198 bp overlap
ChIP MCF-7 ENCFF954TUV 150 bp overlap
ChIP MCF-7 ERP000380.CTCF.MCF-7 125 bp overlap
ChIP MCF-7_E2 ERP000380.CTCF.MCF-7_E2 174 bp overlap
ChIP MCF-7_TAM ERP000380.CTCF.MCF-7_TAM 112 bp overlap
ChIP Peyer's patch ENCFF701KWW 351 bp overlap
ChIP Peyer's patch ENCFF746TCR 357 bp overlap
ChIP Peyer's patch ENCFF828IDE 341 bp overlap
ChIP WA01 ENCSR000DLK.CTCF.WA01 90 bp overlap
ChIP activated CD4-positive, alpha-beta T cell ENCFF095PZX 705 bp overlap
ChIP adrenal gland ENCFF596QXB 431 bp overlap
ChIP adrenal gland ENCFF678WUB 311 bp overlap
ChIP adrenal gland ENCFF886WNR 501 bp overlap
ChIP body of pancreas ENCFF269EDN 215 bp overlap
ChIP body of pancreas ENCFF438KTE 273 bp overlap
ChIP body of pancreas ENCFF756FGB 445 bp overlap
ChIP body of pancreas ENCFF881RGF 107 bp overlap
ChIP bronchial epithelial cell ENCFF500SEA 271 bp overlap
ChIP cardiac muscle cell ENCFF728JSA 365 bp overlap
ChIP choroid plexus epithelial cell ENCFF407YNR 277 bp overlap
ChIP delta-47 GSE70764.CTCF.delta-47 165 bp overlap
ChIP dorsolateral prefrontal cortex ENCFF373BUI 397 bp overlap
ChIP dorsolateral prefrontal cortex ENCFF433UFM 545 bp overlap
ChIP dorsolateral prefrontal cortex ENCFF696ASB 477 bp overlap
ChIP dorsolateral prefrontal cortex ENCFF835ZSJ 537 bp overlap
ChIP endothelial cell of umbilical vein ENCFF947JAB 381 bp overlap
ChIP epithelial cell of prostate ENCFF086GTI 401 bp overlap
ChIP esophagus muscularis mucosa ENCFF534UGM 234 bp overlap
ChIP esophagus squamous epithelium ENCFF700BXI 397 bp overlap
ChIP fibroblast of villous mesenchyme ENCFF345VQO 321 bp overlap
ChIP gastrocnemius medialis ENCFF307PRR 457 bp overlap
ChIP gastroesophageal sphincter ENCFF569YIT 451 bp overlap
ChIP gastroesophageal sphincter ENCFF918KPI 117 bp overlap
ChIP gastroesophageal sphincter ENCFF918KPI 337 bp overlap
ChIP heart left ventricle ENCFF244ZHV 437 bp overlap
ChIP heart left ventricle ENCFF354HOQ 461 bp overlap
ChIP heart right ventricle ENCFF027ORH 471 bp overlap
ChIP heart right ventricle ENCFF027ORH 444 bp overlap
ChIP heart right ventricle ENCFF577TID 391 bp overlap
ChIP hepatocyte ERP000395.CTCF.hepatocyte 108 bp overlap
ChIP keratinocyte ENCFF046PBT 185 bp overlap
ChIP keratinocyte ENCFF291YDC 185 bp overlap
ChIP keratinocyte ENCFF667ULX 325 bp overlap
ChIP left ventricle myocardium inferior ENCFF161DPW 278 bp overlap
ChIP liver ENCFF895ERR 251 bp overlap
ChIP lower lobe of left lung ENCFF906NCV 257 bp overlap
ChIP lower lobe of right lung ENCFF092XHT 226 bp overlap
ChIP pancreas ENCFF315CUI 451 bp overlap
ChIP pancreas ENCFF372XNU 451 bp overlap
ChIP prostate gland ENCFF979KAF 381 bp overlap
ChIP right lobe of liver ENCFF011NDG 441 bp overlap
ChIP right lobe of liver ENCFF250KSY 421 bp overlap
ChIP right lobe of liver ENCFF956UTA 377 bp overlap
ChIP sigmoid colon ENCFF219LPW 405 bp overlap
ChIP sigmoid colon ENCFF397ZZF 485 bp overlap
ChIP sigmoid colon ENCFF397ZZF 485 bp overlap
ChIP spleen ENCFF520HPZ 232 bp overlap
ChIP spleen ENCFF678RAG 211 bp overlap
ChIP stomach ENCFF719DAZ 431 bp overlap
ChIP stomach ENCFF918GTC 505 bp overlap
ChIP suprapubic skin ENCFF266CTJ 445 bp overlap
ChIP testis ENCFF128XQJ 371 bp overlap
ChIP thoracic aorta ENCFF012WJQ 437 bp overlap
ChIP thoracic aorta ENCFF166PKA 461 bp overlap
ChIP thyroid gland ENCFF300RYK 445 bp overlap
ChIP thyroid gland ENCFF631QRY 457 bp overlap
ChIP transverse colon ENCFF594PFO 457 bp overlap
ChIP transverse colon ENCFF653EYS 140 bp overlap
ChIP transverse colon ENCFF749DPF 481 bp overlap
ChIP upper lobe of left lung ENCFF277NLT 290 bp overlap
ChIP upper lobe of left lung ENCFF645BXH 431 bp overlap
ChIP upper lobe of left lung ENCFF654BFF 471 bp overlap
ChIP upper lobe of right lung ENCFF065JCM 214 bp overlap
CTCFL 1 dataset
Motif DE_12h DE_12h-CTCFL_MA1102.3 8 bp overlap
Cebpa 3 datasets
ChIP BLaER1 ENCFF031ISE 268 bp overlap
ChIP BLaER1 ENCFF262VBH 254 bp overlap
ChIP BLaER1 ENCFF364PUR 251 bp overlap
DRAP1 1 dataset
ChIP HepG2 ENCFF296JHR 215 bp overlap
FEZF2 1 dataset
Motif DE_12h DE_12h-FEZF2_MA2341.1 8 bp overlap
GATA1 3 datasets
ChIP erythroblast ENCFF867JAR 397 bp overlap
ChIP erythroblast ENCFF867JAR 191 bp overlap
ChIP erythroblast ENCSR000EXP.GATA1.erythroblast 171 bp overlap
GATA4 1 dataset
ChIP DE DE-GATA4-2 327 bp overlap
GATA6 2 datasets
ChIP DE DE-GATA6-2 375 bp overlap
ChIP DE_D1 S41-DE-d1-GATA6-exp2 346 bp overlap
GCM1 2 datasets
Motif DE_12h DE_12h-GCM1_MA0646.2 10 bp overlap
Motif DE_24h DE_24h-GCM1_MA0646.2 10 bp overlap
LIN54 1 dataset
ChIP HepG2 ENCFF662XDE 449 bp overlap
MYC 1 dataset
ChIP MCF-7 ENCFF542NWJ 305 bp overlap
NFYA 1 dataset
ChIP HepG2 ENCFF883OMO 354 bp overlap
NFYB 8 datasets
ChIP GM12878 ENCFF474DNH 289 bp overlap
ChIP GM12878 ENCSR000DNM.NFYB.GM12878 175 bp overlap
ChIP HeLa-S3 ENCSR000DNR.NFYB.HeLa-S3 164 bp overlap
ChIP HepG2 ENCFF174VYX 253 bp overlap
ChIP K-562 ENCSR000EGQ.NFYB.K-562 207 bp overlap
ChIP K-562 GSE26439.NFYB.K-562 189 bp overlap
ChIP K562 ENCFF709RXX 180 bp overlap
ChIP WTC11 ENCFF751ZTQ 311 bp overlap
NFYC 1 dataset
ChIP HepG2 ENCFF836FYP 249 bp overlap
NONO 3 datasets
ChIP Hep-G2 GSE120104.NONO.Hep-G2 162 bp overlap
ChIP Hep-G2 ENCSR923UTX.NONO.Hep-G2 161 bp overlap
ChIP HepG2 ENCFF819JPN 281 bp overlap
NOTCH1 1 dataset
ChIP HPBALL GSE39263.NOTCH1.HPBALL 155 bp overlap
Neurod2 2 datasets
Motif DE_12h DE_12h-Neurod2_MA1993.2 6 bp overlap
Motif DE_24h DE_24h-Neurod2_MA1993.2 6 bp overlap
Olig2 2 datasets
Motif DE_12h DE_12h-Olig2_MA1997.2 6 bp overlap
Motif DE_24h DE_24h-Olig2_MA1997.2 6 bp overlap
PATZ1 1 dataset
Motif DE_12h DE_12h-PATZ1_MA1961.2 11 bp overlap
PKNOX1 1 dataset
ChIP HEK293T ENCFF174WDB 322 bp overlap
POLR2A 9 datasets
ChIP GM23338 ENCFF450WCS 491 bp overlap
ChIP HepG2 ENCFF350RIU 251 bp overlap
ChIP HepG2 ENCFF718XAJ 203 bp overlap
ChIP HepG2 ENCFF736SLT 266 bp overlap
ChIP body of pancreas ENCFF501FEC 637 bp overlap
ChIP erythroblast ENCFF498VMR 463 bp overlap
ChIP gastroesophageal sphincter ENCFF826EZZ 232 bp overlap
ChIP spleen ENCFF044PYR 116 bp overlap
ChIP spleen ENCFF706IUS 327 bp overlap
POLR2G 2 datasets
ChIP HepG2 ENCFF241AEG 125 bp overlap
ChIP HepG2 ENCFF508UTS 203 bp overlap
POU5F1 1 dataset
ChIP DE_D1 DED1-OCT4_Batch_II 666 bp overlap
POU5F1_M 1 dataset
ChIP DE_D1 DED1-OCT4-M_Batch_II 767 bp overlap
RAD21 2 datasets
ChIP H1 ENCFF698EWO 241 bp overlap
ChIP MCF-7 ENCFF724VCQ 257 bp overlap
RFX1 2 datasets
ChIP MCF-7 ENCFF782EZS 227 bp overlap
ChIP MCF-7 ENCSR066TET.RFX1.MCF-7 202 bp overlap
SMAD2_3 1 dataset
ChIP ESC S23-ESC-d0-SMAD2_3-exp1 384 bp overlap
SMARCC1 1 dataset
ChIP ESC S25-ESC-d0-BAF155-exp1 503 bp overlap
SOX17_M 1 dataset
ChIP DE_D2 DED2-SOX17-M_Batch_II 641 bp overlap
SP1 1 dataset
Motif DE_12h DE_12h-SP1_MA0079.5 9 bp overlap
SP2 1 dataset
ChIP HEK293 ENCFF181QXT 356 bp overlap
SP5 1 dataset
Motif DE_12h DE_12h-SP5_MA1965.2 6 bp overlap
TBP 1 dataset
ChIP HepG2 ENCFF023IVD 235 bp overlap
TEAD3 1 dataset
ChIP HepG2 ENCFF054UUL 118 bp overlap
TRIM28 1 dataset
ChIP hESC GSE115387.TRIM28.hESC 252 bp overlap
Tcf12 2 datasets
Motif DE_12h DE_12h-Tcf12_MA0521.3 6 bp overlap
Motif DE_24h DE_24h-Tcf12_MA0521.3 6 bp overlap
Twist2 2 datasets
Motif DE_12h DE_12h-Twist2_MA0633.3 6 bp overlap
Motif DE_24h DE_24h-Twist2_MA0633.3 6 bp overlap
Wt1 1 dataset
Motif DE_12h DE_12h-Wt1_MA1627.2 10 bp overlap
YY1 3 datasets
ChIP ALL GSE145549.YY1.ALL 241 bp overlap
ChIP Hep-G2_NC GSE120104.YY1.Hep-G2_NC 207 bp overlap
ChIP Hep-G2_RBM25-KD GSE120104.YY1.Hep-G2_RBM25-KD 154 bp overlap
ZBTB33 4 datasets
ChIP HepG2 ENCFF778UKV 100 bp overlap
ChIP K-562 ENCSR876GXA.ZBTB33.K-562 282 bp overlap
ChIP K562 ENCFF427SDV 505 bp overlap
ChIP K562 ENCFF875HLX 263 bp overlap
ZMYM4 1 dataset
ChIP HepG2 ENCFF567SQY 268 bp overlap
ZNF18 1 dataset
ChIP HEK293 ENCFF066NGR 180 bp overlap
ZNF213 2 datasets
Motif DE_12h DE_12h-ZNF213_MA2121.1 12 bp overlap
Motif DE_24h DE_24h-ZNF213_MA2121.1 12 bp overlap
ZNF276 1 dataset
ChIP HepG2 ENCFF431WQQ 274 bp overlap
ZNF281 1 dataset
Motif DE_12h DE_12h-ZNF281_MA1630.3 10 bp overlap
ZNF335 2 datasets
ChIP HEK293 ENCFF784SLD 443 bp overlap
ChIP HEK293 ENCFF784SLD 110 bp overlap
ZNF449 2 datasets
Motif DE_12h DE_12h-ZNF449_MA1656.2 10 bp overlap
Motif DE_24h DE_24h-ZNF449_MA1656.2 10 bp overlap
ZNF460 3 datasets
Motif DE_12h DE_12h-ZNF460_MA1596.1 16 bp overlap
Motif DE_12h DE_12h-ZNF460_MA1596.1 16 bp overlap
Motif DE_24h DE_24h-ZNF460_MA1596.1 16 bp overlap
ZNF48 2 datasets
ChIP HepG2 ENCFF362CDQ 591 bp overlap
ChIP HepG2 ENCFF362CDQ 547 bp overlap
ZNF770 1 dataset
Motif DE_12h DE_12h-ZNF770_MA2099.1 8 bp overlap
ZNF816 3 datasets
Motif DE_12h DE_12h-ZNF816_MA1719.2 15 bp overlap
Motif DE_12h DE_12h-ZNF816_MA1719.2 15 bp overlap
Motif DE_24h DE_24h-ZNF816_MA1719.2 15 bp overlap
Zfp335 2 datasets
Motif DE_12h DE_12h-Zfp335_MA2002.2 7 bp overlap
Motif DE_24h DE_24h-Zfp335_MA2002.2 7 bp overlap
Zic2 1 dataset
Motif DE_12h DE_12h-Zic2_MA1629.2 9 bp overlap
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