chr4 : 39,998,717 – 39,999,424
707 bp 55 TFs 3 linked genes
This 707 bp open chromatin element is linked to PDS5A, N4BP2, and ENSG00000260296 and is bound by 55 transcription factors.
Linked Genes
3 genes
Gene↕ Expression Dist. to TSS↑ Distance↕ Link type↕
PDS5A 21.2 kb Distal Multiome
N4BP2 57.7 kb Distal Multiome
ENSG00000260296 167.6 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.
chr4:39,993,717 – 40,004,424
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
ARID2 1 dataset
ChIP BIN-67_ctrl GSE117734.ARID2.BIN-67_ctrl 650 bp overlap
BMI1 1 dataset
ChIP MCF-7 ENCSR966YYJ.BMI1.MCF-7 220 bp overlap
Cebpa 1 dataset
ChIP BLaER1 ENCFF031ISE 140 bp overlap
Crx 2 datasets
Motif DE_48h DE_48h-Crx_MA0467.3 6 bp overlap
Motif DE_72h DE_72h-Crx_MA0467.3 6 bp overlap
DPF2 3 datasets
ChIP BIN-67_ctrl GSE117734.DPF2.BIN-67_ctrl 499 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-K785R GSE117734.DPF2.BIN-67_lentivirus-SMARCA4-K785R 339 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-T910M GSE117734.DPF2.BIN-67_lentivirus-SMARCA4-T910M 707 bp overlap
Dmbx1 2 datasets
Motif DE_48h DE_48h-Dmbx1_MA0883.2 10 bp overlap
Motif DE_72h DE_72h-Dmbx1_MA0883.2 10 bp overlap
EGR3 1 dataset
Motif DE_48h DE_48h-EGR3_MA0732.2 11 bp overlap
EGR4 1 dataset
Motif DE_48h DE_48h-EGR4_MA0733.2 11 bp overlap
EOMES 1 dataset
ChIP hESC GSE26097.EOMES.hESC 288 bp overlap
FOSL2 2 datasets
Motif DE_48h DE_48h-FOSL2_MA0478.2 10 bp overlap
Motif DE_72h DE_72h-FOSL2_MA0478.2 10 bp overlap
FOXA2 2 datasets
ChIP DE DE-FOXA2-1 567 bp overlap
ChIP DE DE-FOXA2-2 514 bp overlap
GATA1 1 dataset
ChIP CD34_Day7_30min GSE104676.GATA1.CD34_Day7_30min 55 bp overlap
GATA2 1 dataset
ChIP dermal-fibroblast_alone GSE51025.GATA2.dermal-fibroblast_alone 251 bp overlap
GATA4 5 datasets
ChIP DE DE-GATA4-1 529 bp overlap
ChIP DE DE-GATA4-2 707 bp overlap
ChIP foregut GSE117136.GATA4.foregut 379 bp overlap
ChIP pancreatic-progenitor GSE117136.GATA4.pancreatic-progenitor 317 bp overlap
ChIP pancreatic-progenitor_PP1 GSE104840.GATA4.pancreatic-progenitor_PP1 237 bp overlap
GATA6 9 datasets
ChIP DE DE-GATA6-1 461 bp overlap
ChIP DE DE-GATA6-2 640 bp overlap
ChIP DE_D1 S09-DE-d1-GATA6-exp1 452 bp overlap
ChIP DE_D1 S14-DE-d1-GATA6-exp1 360 bp overlap
ChIP DE_D2 S55-DE-d2-GATA6-exp2 512 bp overlap
ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 264 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.GATA6.HUES-8_DE_ctrl 342 bp overlap
ChIP endoderm_KO GSE117136.GATA6.endoderm_KO 373 bp overlap
ChIP foregut GSE117136.GATA6.foregut 261 bp overlap
GLIS1 1 dataset
ChIP HEK293 ENCSR482BBZ.GLIS1.HEK293 339 bp overlap
GSC 2 datasets
Motif DE_48h DE_48h-GSC_MA0648.2 6 bp overlap
Motif DE_72h DE_72h-GSC_MA0648.2 6 bp overlap
GSC2 2 datasets
Motif DE_48h DE_48h-GSC2_MA0891.2 6 bp overlap
Motif DE_72h DE_72h-GSC2_MA0891.2 6 bp overlap
JUN 1 dataset
ChIP DE_D2 S02-DE-d2-JUN-exp1 280 bp overlap
KLF4 1 dataset
ChIP HAP1 GSE130417.KLF4.HAP1 398 bp overlap
KMT2C 2 datasets
ChIP BIN-67_ctrl GSE117734.KMT2C.BIN-67_ctrl 707 bp overlap
ChIP BIN-67_lentivirus-SMARCA4 GSE117734.KMT2C.BIN-67_lentivirus-SMARCA4 333 bp overlap
KMT2D 3 datasets
ChIP BIN-67_ctrl GSE117734.KMT2D.BIN-67_ctrl 696 bp overlap
ChIP BIN-67_lentivirus-SMARCA4 GSE117734.KMT2D.BIN-67_lentivirus-SMARCA4 263 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-T910M GSE117734.KMT2D.BIN-67_lentivirus-SMARCA4-T910M 497 bp overlap
MITF 1 dataset
ChIP 501-mel_20ng_K243R GSE137522.MITF.501-mel_20ng_K243R 228 bp overlap
NEUROD1 1 dataset
ChIP D283-Med GSE92582.NEUROD1.D283-Med 550 bp overlap
NKX2-1 1 dataset
ChIP H9_derived-cIN GSE99937.NKX2-1.H9_derived-cIN 51 bp overlap
ONECUT1 2 datasets
ChIP H9 ERP004206.ONECUT1.H9 225 bp overlap
ChIP pancreatic-progenitor_PP1 GSE104840.ONECUT1.pancreatic-progenitor_PP1 292 bp overlap
OTX1 2 datasets
Motif DE_48h DE_48h-OTX1_MA0711.2 6 bp overlap
Motif DE_72h DE_72h-OTX1_MA0711.2 6 bp overlap
OTX2 2 datasets
Motif DE_48h DE_48h-OTX2_MA0712.3 7 bp overlap
Motif DE_72h DE_72h-OTX2_MA0712.3 7 bp overlap
PITX1 2 datasets
Motif DE_48h DE_48h-PITX1_MA0682.3 6 bp overlap
Motif DE_72h DE_72h-PITX1_MA0682.3 6 bp overlap
PITX3 2 datasets
Motif DE_48h DE_48h-PITX3_MA0714.2 6 bp overlap
Motif DE_72h DE_72h-PITX3_MA0714.2 6 bp overlap
POU5F1 1 dataset
ChIP hESC_NAIVE GSE69646.POU5F1.hESC_NAIVE 415 bp overlap
PRDM6 1 dataset
ChIP HEK293 ENCSR892QHR.PRDM6.HEK293 196 bp overlap
PRDM9 1 dataset
Motif DE_48h DE_48h-PRDM9_MA1723.2 20 bp overlap
RAD21 2 datasets
ChIP HAP1 GSE152721.RAD21.HAP1 493 bp overlap
ChIP HAP1_CTCF GSE126634.RAD21.HAP1_CTCF 331 bp overlap
RFX1 7 datasets
ChIP K-562 ENCSR968GIB.RFX1.K-562 378 bp overlap
ChIP K-562 ENCSR041AXL.RFX1.K-562 338 bp overlap
ChIP K562 ENCFF421AVO 335 bp overlap
ChIP K562 ENCFF809XVG 374 bp overlap
ChIP MCF-7 ENCFF782EZS 367 bp overlap
ChIP MCF-7 ENCSR788XNX.RFX1.MCF-7 311 bp overlap
ChIP MCF-7 ENCSR066TET.RFX1.MCF-7 305 bp overlap
RHOXF1 2 datasets
Motif DE_48h DE_48h-RHOXF1_MA0719.2 6 bp overlap
Motif DE_72h DE_72h-RHOXF1_MA0719.2 6 bp overlap
RUNX1 1 dataset
ChIP SKH1 GSE87283.RUNX1.SKH1 193 bp overlap
SMAD2-3 1 dataset
ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 296 bp overlap
SMAD2_3 2 datasets
ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 227 bp overlap
ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 369 bp overlap
SMARCA4 6 datasets
ChIP A-549_AG15685 GSE132290.SMARCA4.A-549_AG15685 193 bp overlap
ChIP A-549_AG15723 GSE132290.SMARCA4.A-549_AG15723 104 bp overlap
ChIP A-549_AG15723 GSE132290.SMARCA4.A-549_AG15723 89 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-K785R GSE117734.SMARCA4.BIN-67_lentivirus-SMARCA4-K785R 577 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-T910M GSE117734.SMARCA4.BIN-67_lentivirus-SMARCA4-T910M 707 bp overlap
ChIP BT-16_Dox GSE71504.SMARCA4.BT-16_Dox 162 bp overlap
SMARCC1 4 datasets
ChIP BIN-67 GSE117734.SMARCC1.BIN-67 301 bp overlap
ChIP BIN-67_ctrl GSE117734.SMARCC1.BIN-67_ctrl 476 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-K785R GSE117734.SMARCC1.BIN-67_lentivirus-SMARCA4-K785R 197 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-T910M GSE117734.SMARCC1.BIN-67_lentivirus-SMARCA4-T910M 671 bp overlap
SOX17 1 dataset
ChIP DE_D2 DED2-SOX17_Batch_II 230 bp overlap
SOX17_M 1 dataset
ChIP DE_D2 DED2-SOX17-M_Batch_II 322 bp overlap
SP5 2 datasets
Motif DE_48h DE_48h-SP5_MA1965.2 6 bp overlap
Motif DE_72h DE_72h-SP5_MA1965.2 6 bp overlap
SP8 1 dataset
Motif DE_72h DE_72h-SP8_MA0747.2 11 bp overlap
SPI1 2 datasets
ChIP BDMC_donorG GSE128834.SPI1.BDMC_donorG 115 bp overlap
ChIP BDMC_donorH GSE128834.SPI1.BDMC_donorH 223 bp overlap
SS18 3 datasets
ChIP BIN-67_lentivirus-SMARCA4 GSE117734.SS18.BIN-67_lentivirus-SMARCA4 320 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-K785R GSE117734.SS18.BIN-67_lentivirus-SMARCA4-K785R 346 bp overlap
ChIP BIN-67_lentivirus-SMARCA4-T910M GSE117734.SS18.BIN-67_lentivirus-SMARCA4-T910M 707 bp overlap
STAT3 1 dataset
ChIP MCF-10A ENCSR000DOZ.STAT3.MCF-10A 147 bp overlap
TEAD1 1 dataset
ChIP pancreas_12D ERP008682.TEAD1.pancreas_12D 138 bp overlap
Thap11 1 dataset
Motif DE_72h DE_72h-Thap11_MA1573.2 14 bp overlap
USF1 4 datasets
ChIP H1 ENCFF090WVU 241 bp overlap
ChIP Ishikawa ENCSR000BSX.USF1.Ishikawa 113 bp overlap
ChIP SK-N-SH ENCSR000BMF.USF1.SK-N-SH 111 bp overlap
ChIP WA01 ENCSR000BIU.USF1.WA01 215 bp overlap
ZNF135 2 datasets
Motif DE_48h DE_48h-ZNF135_MA1587.1 14 bp overlap
Motif DE_72h DE_72h-ZNF135_MA1587.1 14 bp overlap
ZNF257 2 datasets
Motif DE_48h DE_48h-ZNF257_MA1710.2 10 bp overlap
Motif DE_72h DE_72h-ZNF257_MA1710.2 10 bp overlap
ZNF384 2 datasets
ChIP Hep-G2 ENCSR101FJU.ZNF384.Hep-G2 173 bp overlap
ChIP HepG2 ENCFF129PLC 170 bp overlap
ZNF460 2 datasets
Motif DE_48h DE_48h-ZNF460_MA1596.1 16 bp overlap
Motif DE_72h DE_72h-ZNF460_MA1596.1 16 bp overlap
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