chr9 : 89,225,983 89,226,479
496 bp 72 TFs 5 linked genes
This 496 bp open chromatin element is linked to 5 target genes and is bound by 72 transcription factors.
Linked Genes
5 genes
Gene Expression Dist. to TSS Distance Link type
SHC3 47.5 kb Distal Multiome
CKS2 84.9 kb Distal Multiome
SECISBP2 92.5 kb Distal Multiome
S1PR3 235.5 kb Distal Multiome
SEMA4D 271.8 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.
chr9:89,220,983 – 89,231,479
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
72 transcription factors
Source
Cell type
AR 2 datasets
ChIP LNCaP GSE117430.AR.LNCaP 114 bp overlap
ChIP MCF-7 GSE48930.AR.MCF-7 152 bp overlap
ARID2 1 dataset
ChIP NGP GSE134626.ARID2.NGP 152 bp overlap
ATF2 1 dataset
ChIP WA01 ENCSR000BQU.ATF2.WA01 191 bp overlap
ATF3 1 dataset
ChIP WA01 ENCSR000BKC.ATF3.WA01 129 bp overlap
BCL11A 1 dataset
ChIP HUDEP-2_30min GSE104676.BCL11A.HUDEP-2_30min 69 bp overlap
BRD2 1 dataset
ChIP MV4-11_IBET151_500nM GSE120715.BRD2.MV4-11_IBET151_500nM 61 bp overlap
BRD4 4 datasets
ChIP IMR-90_QUIES GSE74238.BRD4.IMR-90_QUIES 213 bp overlap
ChIP cortical-interneuron GSE117508.BRD4.cortical-interneuron 177 bp overlap
ChIP cortical-interneuron_R133C_KCl-neg_JQ1-neg GSE117508.BRD4.cortical-interneuron_R133C_KCl-neg_JQ1-neg 383 bp overlap
ChIP cortical-interneuron_R133C_KCl-pos_JQ1-neg GSE117508.BRD4.cortical-interneuron_R133C_KCl-pos_JQ1-neg 496 bp overlap
CBX4 1 dataset
ChIP hMSC GSE117084.CBX4.hMSC 158 bp overlap
CDK6 1 dataset
ChIP KB_IL GSE52469.CDK6.KB_IL 100 bp overlap
CHD7 2 datasets
ChIP hiPSC_AF22_abD3F5 GSE108506.CHD7.hiPSC_AF22_abD3F5 162 bp overlap
ChIP hiPSC_derived_lt-NES GSE108506.CHD7.hiPSC_derived_lt-NES 255 bp overlap
CRY1 1 dataset
ChIP U2OS GSE44236.CRY1.U2OS 293 bp overlap
CTCF 17 datasets
ChIP HUDEP-2_30min GSE104676.CTCF.HUDEP-2_30min 79 bp overlap
ChIP astrocyte ENCFF042YJV 52 bp overlap
ChIP cardiac muscle cell ENCFF728JSA 59 bp overlap
ChIP chondrocyte ENCFF134ORZ 174 bp overlap
ChIP choroid-plexus_epithelial ENCSR000DTL.CTCF.choroid-plexus_epithelial 68 bp overlap
ChIP esophagus muscularis mucosa ENCFF045JBW 133 bp overlap
ChIP esophagus muscularis mucosa ENCFF045JBW 352 bp overlap
ChIP esophagus-muscularis-mucosa ENCSR073TPC.CTCF.esophagus-muscularis-mucosa 91 bp overlap
ChIP gastroesophageal sphincter ENCFF125ESZ 73 bp overlap
ChIP gastroesophageal sphincter ENCFF569YIT 128 bp overlap
ChIP gastroesophageal-sphincter ENCSR298ZPF.CTCF.gastroesophageal-sphincter 110 bp overlap
ChIP gastroesophageal-sphincter ENCSR146BGM.CTCF.gastroesophageal-sphincter 71 bp overlap
ChIP neural progenitor cell ENCFF581WPG 181 bp overlap
ChIP primary-glioblastoma_G523 GSE121601.CTCF.primary-glioblastoma_G523 117 bp overlap
ChIP type B pancreatic cell ENCFF910FNQ 102 bp overlap
ChIP type B pancreatic cell ENCFF910FNQ 301 bp overlap
ChIP uterus ENCFF924IAA 75 bp overlap
CTNNB1 1 dataset
ChIP hiPSC_D2 GSE132532.CTNNB1.hiPSC_D2 214 bp overlap
Cebpa 2 datasets
ChIP BLaER1 ENCFF335XTP 187 bp overlap
ChIP BLaER1 ENCFF896HSY 92 bp overlap
ERF::FOXO1 2 datasets
Motif DE_36h DE_36h-ERFFOXO1_MA1936.2 12 bp overlap
Motif DE_72h DE_72h-ERFFOXO1_MA1936.2 12 bp overlap
ERG 1 dataset
ChIP SKNO-1 GSE23730.ERG.SKNO-1 195 bp overlap
ESR1 7 datasets
ChIP Ishikawa_E2-1h GSE129803.ESR1.Ishikawa_E2-1h 351 bp overlap
ChIP Ishikawa_siETV4-72h GSE129803.ESR1.Ishikawa_siETV4-72h 299 bp overlap
ChIP Ishikawa_siNTC-72h GSE129803.ESR1.Ishikawa_siNTC-72h 214 bp overlap
ChIP Ishikawa_siNTC-96h GSE129803.ESR1.Ishikawa_siNTC-96h 157 bp overlap
ChIP MCF-7 GSE48930.ESR1.MCF-7 205 bp overlap
ChIP MCF-7_Veh GSE93510.ESR1.MCF-7_Veh 84 bp overlap
ChIP MCF-7_aldosterone GSE99626.ESR1.MCF-7_aldosterone 336 bp overlap
EZH2 1 dataset
ChIP DND41 ENCSR000ASW.EZH2.DND41 496 bp overlap
FOXA1 1 dataset
ChIP LNCaP_S2101-48H GSE114266.FOXA1.LNCaP_S2101-48H 162 bp overlap
GATA1 1 dataset
ChIP CD34_Day7_30min GSE104676.GATA1.CD34_Day7_30min 115 bp overlap
GATA2 1 dataset
ChIP LNCaP_CSFCS GSE69043.GATA2.LNCaP_CSFCS 130 bp overlap
GATA4 2 datasets
Motif DE_36h DE_36h-GATA4_MA0482.3 8 bp overlap
Motif DE_72h DE_72h-GATA4_MA0482.3 8 bp overlap
GATA6 4 datasets
ChIP DE DE-GATA6-2 315 bp overlap
ChIP DE_D1 S14-DE-d1-GATA6-exp1 294 bp overlap
ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 423 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.GATA6.HUES-8_DE_ctrl 278 bp overlap
GTF3C2 1 dataset
ChIP H9 GSE94418.GTF3C2.H9 198 bp overlap
HCFC1R1 1 dataset
ChIP cartilage GSE100311.HCFC1R1.cartilage 344 bp overlap
HMGA2 1 dataset
ChIP WTC11 ENCFF535JLP 397 bp overlap
KDM4C 1 dataset
ChIP KYSE-150 GSE53938.KDM4C.KYSE-150 173 bp overlap
MAX 1 dataset
ChIP WA01 ENCSR000EUP.MAX.WA01 138 bp overlap
MED12 3 datasets
ChIP leiomyoma_PT967 GSE128230.MED12.leiomyoma_PT967 57 bp overlap
ChIP myometrium_PT886 GSE128230.MED12.myometrium_PT886 135 bp overlap
ChIP myometrium_PT916 GSE128230.MED12.myometrium_PT916 137 bp overlap
MITF 1 dataset
ChIP melanocyte_CTR GSE50681.MITF.melanocyte_CTR 259 bp overlap
MXI1 4 datasets
ChIP SK-N-SH ENCFF746HVJ 432 bp overlap
ChIP SK-N-SH ENCSR000EIA.MXI1.SK-N-SH 327 bp overlap
ChIP neural ENCSR934NHU.MXI1.neural 353 bp overlap
ChIP neural cell ENCFF623HQN 496 bp overlap
MYC 3 datasets
ChIP NB69 GSE138295.MYC.NB69 216 bp overlap
ChIP P493-6 GSE77061.MYC.P493-6 147 bp overlap
ChIP P493-6_SHCTR GSE60223.MYC.P493-6_SHCTR 146 bp overlap
MYCN 3 datasets
ChIP BE2C GSE80151.MYCN.BE2C 289 bp overlap
ChIP NB-1643 GSE138295.MYCN.NB-1643 256 bp overlap
ChIP SK-N-BE2-C GSE80151.MYCN.SK-N-BE2-C 289 bp overlap
NANOG 1 dataset
ChIP HUES-8 GSE109524.NANOG.HUES-8 162 bp overlap
NCOA2 1 dataset
ChIP MCF-7_E2 ERP000901.NCOA2.MCF-7_E2 139 bp overlap
NR3C1 1 dataset
ChIP Ishikawa ENCSR000BJC.NR3C1.Ishikawa 101 bp overlap
NRIP1 1 dataset
ChIP MCF-7 ERP005838.NRIP1.MCF-7 151 bp overlap
PDX1 1 dataset
ChIP hiPSC_derived_PPs GSE106949.PDX1.hiPSC_derived_PPs 151 bp overlap
PGR 2 datasets
ChIP myometrium_NP1 GSE137550.PGR.myometrium_NP1 496 bp overlap
ChIP myometrium_NP2 GSE137550.PGR.myometrium_NP2 496 bp overlap
POLR2A 1 dataset
ChIP neural cell ENCFF604SPB 385 bp overlap
POU4F2 1 dataset
ChIP HNPC_DIF GSE74814.POU4F2.HNPC_DIF 365 bp overlap
POU5F1 1 dataset
ChIP BG03 GSE21614.POU5F1.BG03 325 bp overlap
POU5F1_M 1 dataset
ChIP DE_D1 DED1-OCT4-M_Batch_II 496 bp overlap
RAD21 1 dataset
ChIP neural cell ENCFF564MOT 341 bp overlap
RBPJ 2 datasets
ChIP GSC8-11_12d-das GSE74557.RBPJ.GSC8-11_12d-das 252 bp overlap
ChIP GSC8-11_dasatinib GSE74557.RBPJ.GSC8-11_dasatinib 376 bp overlap
REST 3 datasets
ChIP neural ENCSR000BTV.REST.neural 310 bp overlap
ChIP neural cell ENCFF882LXX 487 bp overlap
ChIP neural cell ENCFF882LXX 313 bp overlap
RFX1 6 datasets
ChIP K-562 ENCSR968GIB.RFX1.K-562 284 bp overlap
ChIP K-562 ENCSR041AXL.RFX1.K-562 252 bp overlap
ChIP K562 ENCFF421AVO 158 bp overlap
ChIP K562 ENCFF809XVG 335 bp overlap
ChIP MCF-7 ENCFF782EZS 113 bp overlap
ChIP MCF-7 ENCSR066TET.RFX1.MCF-7 310 bp overlap
RYBP 1 dataset
ChIP WA01 GSE104690.RYBP.WA01 280 bp overlap
SIN3A 3 datasets
ChIP H1 ENCFF042ZSL 279 bp overlap
ChIP WA01 ENCSR000EBO.SIN3A.WA01 209 bp overlap
ChIP WA01 ENCSR000BIS.SIN3A.WA01 137 bp overlap
SMARCA4 4 datasets
ChIP NPC_siCT GSE122631.SMARCA4.NPC_siCT 301 bp overlap
ChIP NPC_siSOX GSE122631.SMARCA4.NPC_siSOX 398 bp overlap
ChIP NSC GSE125033.SMARCA4.NSC 267 bp overlap
ChIP hiPSC GSE124903.SMARCA4.hiPSC 235 bp overlap
SMC3 1 dataset
ChIP neural ENCSR404BPV.SMC3.neural 272 bp overlap
SOX2 4 datasets
ChIP HNSC GSE69479.SOX2.HNSC 496 bp overlap
ChIP hiPSC GSE56567.SOX2.hiPSC 369 bp overlap
ChIP hiPSC_INHI GSE67282.SOX2.hiPSC_INHI 211 bp overlap
ChIP hiPSC_KDP53 GSE67282.SOX2.hiPSC_KDP53 189 bp overlap
SP1 1 dataset
ChIP WA01 ENCSR000BIR.SP1.WA01 147 bp overlap
SPI1 1 dataset
ChIP macrophage_IFNG GSE47188.SPI1.macrophage_IFNG 171 bp overlap
TAF1 3 datasets
ChIP WA01 ENCSR000BHO.TAF1.WA01 144 bp overlap
ChIP WA01 ENCSR000BHO.TAF1.WA01 114 bp overlap
ChIP neural ENCSR000BTX.TAF1.neural 107 bp overlap
TCF21 1 dataset
ChIP HCASMC GSE124011.TCF21.HCASMC 114 bp overlap
TEAD1 1 dataset
ChIP pancreas_12D ERP008682.TEAD1.pancreas_12D 163 bp overlap
TEAD3 1 dataset
ChIP HepG2 ENCFF054UUL 60 bp overlap
TET2 1 dataset
ChIP Jurkat_NCKD GSE85524.TET2.Jurkat_NCKD 205 bp overlap
TFAP4 1 dataset
ChIP LNCaP GSE28857.TFAP4.LNCaP 150 bp overlap
TRIM25 1 dataset
ChIP MDA-MB-231 GSE79588.TRIM25.MDA-MB-231 175 bp overlap
TRIM28 2 datasets
ChIP AF22 GSE84259.TRIM28.AF22 496 bp overlap
ChIP hESC GSE115387.TRIM28.hESC 188 bp overlap
USF1 5 datasets
ChIP H1 ENCFF090WVU 124 bp overlap
ChIP SK-N-SH ENCSR000BMF.USF1.SK-N-SH 217 bp overlap
ChIP SK-N-SH ENCSR000BTZ.USF1.SK-N-SH 109 bp overlap
ChIP WA01 ENCSR000BIU.USF1.WA01 361 bp overlap
ChIP WTC11 ENCFF699QGS 425 bp overlap
USF2 4 datasets
ChIP H1 ENCFF434EDF 277 bp overlap
ChIP IMR-90 ENCSR513UQG.USF2.IMR-90 155 bp overlap
ChIP WA01 ENCSR000ECD.USF2.WA01 178 bp overlap
ChIP WTC11 ENCFF139JAW 392 bp overlap
YY1 1 dataset
ChIP WA01 ENCSR000BKD.YY1.WA01 331 bp overlap
ZBTB21 1 dataset
ChIP WTC11 ENCFF677ZYY 330 bp overlap
ZBTB7A 1 dataset
ChIP VCaP_FBS GSE123089.ZBTB7A.VCaP_FBS 173 bp overlap
ZFX 1 dataset
ChIP HEK293T_FLAG GSE145160.ZFX.HEK293T_FLAG 260 bp overlap
ZNF418 2 datasets
Motif DE_36h DE_36h-ZNF418_MA1980.1 15 bp overlap
Motif DE_72h DE_72h-ZNF418_MA1980.1 15 bp overlap