chr9:4,514,255–4,515,200

chr9 : 4,514,255 – 4,515,200

945 bp 105 TFs 8 linked genes

This 945 bp open chromatin element is linked to 8 target genes and is bound by 105 transcription factors.

Linked Genes

8 genes

Gene	Expression	Dist. to TSS	Distance	Link type
SLC1A1		24.4 kb	Distal	Multiome
PLPP6		147.4 kb	Distal	Multiome
SPATA6L		151.5 kb	Distal	Multiome
CDC37L1		164.7 kb	Distal	Multiome
AK3		226.3 kb	Distal	Multiome
ENSG00000287759		226.8 kb	Distal	Multiome
RCL1		278.0 kb	Distal	Multiome
GLIS3		433.5 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

105 transcription factors

ASH2L 2 datasets

ChIP H1 ENCFF399KAM 580 bp overlap

ChIP WA01 ENCSR850KIP.ASH2L.WA01 686 bp overlap

ChIP GM12878 ENCSR014YCR.ATF7.GM12878 309 bp overlap

BCL11A 1 dataset

ChIP WA01 ENCSR000BIP.BCL11A.WA01 123 bp overlap

ChIP SU-DHL-4 GSE119038.BCL6.SU-DHL-4 508 bp overlap

BCOR 3 datasets

ChIP WA01 GSE104690.BCOR.WA01 449 bp overlap

ChIP WA01_RNF2-R GSE104690.BCOR.WA01_RNF2-R 525 bp overlap

ChIP WA01_RNF2-R_Doxycyclin GSE104690.BCOR.WA01_RNF2-R_Doxycyclin 592 bp overlap

ChIP WA01 ENCSR000EBT.CHD2.WA01 148 bp overlap

CHD7 2 datasets

ChIP H1 ENCFF126NLU 583 bp overlap

ChIP WA01 ENCSR000AVA.CHD7.WA01 320 bp overlap

CREB1 3 datasets

ChIP GM23338 ENCFF432ZEW 305 bp overlap

ChIP GM23338 ENCSR214ZAV.CREB1.GM23338 205 bp overlap

ChIP WA01 ENCSR000BSN.CREB1.WA01 105 bp overlap

CTBP2 2 datasets

ChIP H1 ENCFF329MAX 478 bp overlap

ChIP WA01 ENCSR000EUO.CTBP2.WA01 643 bp overlap

ChIP WA01 ENCSR000BSI.E2F6.WA01 153 bp overlap

ESR2 2 datasets

Motif DE_60h DE_60h-ESR2_MA0258.2 15 bp overlap

Motif DE_72h DE_72h-ESR2_MA0258.2 15 bp overlap

ETV5::FIGLA 1 dataset

Motif ES_0h ES_0h-ETV5FIGLA_MA1945.2 14 bp overlap

ChIP WA01 ENCSR000ASY.EZH2.WA01 261 bp overlap

FOXA2 2 datasets

ChIP DE DE-FOXA2-1 346 bp overlap

ChIP DE DE-FOXA2-2 391 bp overlap

FOXP1 1 dataset

ChIP H9 GSE31006.FOXP1.H9 211 bp overlap

Foxn1 2 datasets

Motif DE_60h DE_60h-Foxn1_MA1684.1 6 bp overlap

Motif DE_72h DE_72h-Foxn1_MA1684.1 6 bp overlap

GATA2 1 dataset

ChIP hiPSC_SLC6ebs GSE107639.GATA2.hiPSC_SLC6ebs 260 bp overlap

GATA4 5 datasets

ChIP DE DE-GATA4-1 748 bp overlap

ChIP DE DE-GATA4-2 781 bp overlap

ChIP foregut GSE117136.GATA4.foregut 353 bp overlap

ChIP pancreatic-progenitor GSE117136.GATA4.pancreatic-progenitor 344 bp overlap

ChIP pancreatic-progenitor_PP1 GSE104840.GATA4.pancreatic-progenitor_PP1 355 bp overlap

GATA5 3 datasets

Motif DE_48h DE_48h-GATA5_MA0766.3 8 bp overlap

Motif DE_60h DE_60h-GATA5_MA0766.3 8 bp overlap

Motif DE_72h DE_72h-GATA5_MA0766.3 8 bp overlap

GATA6 8 datasets

ChIP DE DE-GATA6-1 666 bp overlap

ChIP DE DE-GATA6-2 688 bp overlap

Motif DE_48h DE_48h-GATA6_MA1104.3 8 bp overlap

Motif DE_60h DE_60h-GATA6_MA1104.3 8 bp overlap

Motif DE_72h DE_72h-GATA6_MA1104.3 8 bp overlap

ChIP DE_D2 S55-DE-d2-GATA6-exp2 358 bp overlap

ChIP endoderm_KO GSE117136.GATA6.endoderm_KO 329 bp overlap

ChIP foregut GSE117136.GATA6.foregut 373 bp overlap

Gata3 3 datasets

Motif DE_48h DE_48h-Gata3_MA0037.5 8 bp overlap

Motif DE_60h DE_60h-Gata3_MA0037.5 8 bp overlap

Motif DE_72h DE_72h-Gata3_MA0037.5 8 bp overlap

HDAC2 1 dataset

ChIP WA01 ENCSR000AVB.HDAC2.WA01 117 bp overlap

HIC2 3 datasets

Motif DE_48h DE_48h-HIC2_MA0738.2 6 bp overlap

Motif DE_60h DE_60h-HIC2_MA0738.2 6 bp overlap

Motif DE_72h DE_72h-HIC2_MA0738.2 6 bp overlap

HNF4A 1 dataset

Motif ES_0h ES_0h-HNF4A_MA1494.2 14 bp overlap

HNRNPK 2 datasets

ChIP Hep-G2 ENCSR519QAA.HNRNPK.Hep-G2 203 bp overlap

ChIP Hep-G2 GSE120104.HNRNPK.Hep-G2 203 bp overlap

Hand1::Tcf3 2 datasets

Motif DE_60h DE_60h-Hand1Tcf3_MA0092.2 9 bp overlap

Motif DE_72h DE_72h-Hand1Tcf3_MA0092.2 9 bp overlap

IKZF2 1 dataset

Motif ES_0h ES_0h-IKZF2_MA2326.1 6 bp overlap

ChIP DE_D2 S02-DE-d2-JUN-exp1 297 bp overlap

ChIP ESC S34-ESC-d0-JUN-exp2 320 bp overlap

ChIP HUES-8 GSE109524.JUN.HUES-8 390 bp overlap

JUND 2 datasets

ChIP H1 ENCFF010YXS 311 bp overlap

ChIP WA01 ENCSR000EBZ.JUND.WA01 190 bp overlap

MEIS1 6 datasets

Motif DE_60h DE_60h-MEIS1_MA0498.3 5 bp overlap

Motif DE_72h DE_72h-MEIS1_MA0498.3 5 bp overlap

Motif ES_0h ES_0h-MEIS1_MA0498.3 5 bp overlap

Motif ES_0h ES_0h-MEIS1_MA1639.2 9 bp overlap

Motif ES_0h ES_0h-MEIS1_MA1639.2 9 bp overlap

ChIP SEM GSE38339.MEIS1.SEM 238 bp overlap

MLLT1 1 dataset

ChIP GM12878 ENCSR552XSN.MLLT1.GM12878 279 bp overlap

MORC2 1 dataset

ChIP H9 GSE95374.MORC2.H9 279 bp overlap

MSANTD3 2 datasets

Motif ES_0h ES_0h-MSANTD3_MA1523.2 7 bp overlap

Motif ES_0h ES_0h-MSANTD3_MA1523.2 7 bp overlap

ChIP GM12878 ENCSR293QAR.MTA2.GM12878 265 bp overlap

MXI1 4 datasets

Motif DE_60h DE_60h-MXI1_MA1108.3 6 bp overlap

Motif DE_60h DE_60h-MXI1_MA1108.3 6 bp overlap

Motif DE_72h DE_72h-MXI1_MA1108.3 6 bp overlap

Motif DE_72h DE_72h-MXI1_MA1108.3 6 bp overlap

ChIP P493-6_MST-312 GSE77061.MYC.P493-6_MST-312 235 bp overlap

NANOG 11 datasets

ChIP GM23338 ENCFF065NZG 311 bp overlap

ChIP GM23338 ENCSR061DGF.NANOG.GM23338 122 bp overlap

ChIP H1 ENCFF747ZPQ 241 bp overlap

ChIP HUES-8 GSE109524.NANOG.HUES-8 677 bp overlap

ChIP WA01 ERP004238.NANOG.WA01 572 bp overlap

ChIP WA01 ENCSR000BMT.NANOG.WA01 237 bp overlap

ChIP WA01_3IL ERP004238.NANOG.WA01_3IL 689 bp overlap

ChIP WA09 GSE105028.NANOG.WA09 529 bp overlap

ChIP WA09_heat-shock GSE105028.NANOG.WA09_heat-shock 254 bp overlap

ChIP hESC GSE18292.NANOG.hESC 233 bp overlap

ChIP hESC GSE20650.NANOG.hESC 254 bp overlap

NHLH2 2 datasets

Motif DE_60h DE_60h-NHLH2_MA1529.2 16 bp overlap

Motif DE_72h DE_72h-NHLH2_MA1529.2 16 bp overlap

NR1H2::RXRA 1 dataset

Motif ES_0h ES_0h-NR1H2RXRA_MA0115.1 17 bp overlap

NR1H4::RXRA 3 datasets

Motif DE_48h DE_48h-NR1H4RXRA_MA1146.2 13 bp overlap

Motif DE_60h DE_60h-NR1H4RXRA_MA1146.2 13 bp overlap

Motif DE_72h DE_72h-NR1H4RXRA_MA1146.2 13 bp overlap

NR2C2 1 dataset

Motif ES_0h ES_0h-NR2C2_MA0504.2 14 bp overlap

NR2F1 3 datasets

Motif ES_0h ES_0h-NR2F1_MA1537.2 13 bp overlap

ChIP GM12878 ENCFF273VKX 505 bp overlap

ChIP GM12878 ENCSR514VYD.NR2F1.GM12878 256 bp overlap

NR4A1 1 dataset

Motif ES_0h ES_0h-NR4A1_MA1112.3 8 bp overlap

NR4A2 1 dataset

Motif ES_0h ES_0h-NR4A2_MA0160.3 8 bp overlap

Nr2f6 1 dataset

Motif ES_0h ES_0h-Nr2f6_MA0677.2 13 bp overlap

ONECUT2 1 dataset

ChIP A-549 GSE102599.ONECUT2.A-549 299 bp overlap

PAX5 8 datasets

ChIP GM12878 ENCFF482PUW 199 bp overlap

ChIP GM12878 ENCFF503GOV 174 bp overlap

ChIP GM12878 ENCSR000BHJ.PAX5.GM12878 310 bp overlap

ChIP GM12878 ENCSR000BHD.PAX5.GM12878 242 bp overlap

ChIP GM12891 ENCFF490KVF 205 bp overlap

ChIP GM12891 ENCSR000BJH.PAX5.GM12891 258 bp overlap

ChIP GM12892 ENCFF635MSF 277 bp overlap

ChIP GM12892 ENCSR000BJI.PAX5.GM12892 327 bp overlap

PBX3 2 datasets

ChIP GM12878 ENCFF285BQQ 217 bp overlap

ChIP GM12878 ENCSR000BGR.PBX3.GM12878 143 bp overlap

PKNOX1 2 datasets

ChIP GM12878 ENCFF589FCY 272 bp overlap

ChIP GM12878 ENCSR711XNY.PKNOX1.GM12878 427 bp overlap

POU2F1::SOX2 2 datasets

Motif ES_0h ES_0h-POU2F1SOX2_MA1962.1 17 bp overlap

Motif ES_0h ES_0h-POU2F1SOX2_MA1962.1 17 bp overlap

POU2F2 1 dataset

ChIP GM12891 ENCFF166YPP 311 bp overlap

POU5F1 10 datasets

ChIP BG03 GSE21614.POU5F1.BG03 170 bp overlap

Motif ES_0h ES_0h-POU5F1_MA1115.2 7 bp overlap

Motif ES_0h ES_0h-POU5F1_MA1115.2 7 bp overlap

ChIP HUES-8 GSE109524.POU5F1.HUES-8 783 bp overlap

ChIP NCCIT_SNF5 GSE36134.POU5F1.NCCIT_SNF5 575 bp overlap

ChIP WA09 GSE105028.POU5F1.WA09 304 bp overlap

ChIP hESC ENCSR264RJX.POU5F1.hESC 286 bp overlap

ChIP hESC_NAIVE GSE69646.POU5F1.hESC_NAIVE 386 bp overlap

ChIP hESC_PRIMED GSE69646.POU5F1.hESC_PRIMED 469 bp overlap

ChIP hiPSC GSE56567.POU5F1.hiPSC 355 bp overlap

PRDM1 1 dataset

Motif ES_0h ES_0h-PRDM1_MA0508.4 7 bp overlap

PRDM14 3 datasets

ChIP hESC GSE22767.PRDM14.hESC 630 bp overlap

ChIP hESC GSE138674.PRDM14.hESC 429 bp overlap

ChIP primordial-germ-cell-like-cell GSE138674.PRDM14.primordial-germ-cell-like-cell 240 bp overlap

Pou5f1::Sox2 2 datasets

Motif ES_0h ES_0h-Pou5f1Sox2_MA0142.1 15 bp overlap

Motif ES_0h ES_0h-Pou5f1Sox2_MA0142.1 15 bp overlap

Pparg::Rxra 1 dataset

Motif ES_0h ES_0h-PpargRxra_MA0065.3 13 bp overlap

RARA 3 datasets

Motif DE_48h DE_48h-RARA_MA0730.1 17 bp overlap

Motif DE_60h DE_60h-RARA_MA0730.1 17 bp overlap

Motif DE_72h DE_72h-RARA_MA0730.1 17 bp overlap

RBBP5 1 dataset

ChIP WA01 ENCSR000AQC.RBBP5.WA01 358 bp overlap

Motif DE_60h DE_60h-RBPJ_MA1116.2 6 bp overlap

Motif ES_0h ES_0h-RXRB_MA0855.1 14 bp overlap

Motif ES_0h ES_0h-Rxra_MA0512.2 14 bp overlap

SAP30 1 dataset

ChIP WA01 ENCSR000ATR.SAP30.WA01 264 bp overlap

SIN3A 5 datasets

ChIP H1 ENCFF042ZSL 521 bp overlap

ChIP H1 ENCFF042ZSL 396 bp overlap

ChIP WA01 ENCSR000EBO.SIN3A.WA01 231 bp overlap

ChIP hiPSC_IB12 GSE106870.SIN3A.hiPSC_IB12 188 bp overlap

ChIP hiPSC_IID12 GSE106870.SIN3A.hiPSC_IID12 162 bp overlap

SMAD2 1 dataset

ChIP endoderm GSE29422.SMAD2.endoderm 136 bp overlap

SMAD2-3 1 dataset

ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 794 bp overlap

SMAD2_3 3 datasets

ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 322 bp overlap

ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 286 bp overlap

ChIP ESC S33-ESC-d0-SMAD2_3-exp2 270 bp overlap

SMAD3 1 dataset

ChIP BG03 GSE21614.SMAD3.BG03 157 bp overlap

SMARCA4 2 datasets

ChIP hiPSC GSE124903.SMARCA4.hiPSC 361 bp overlap

ChIP hiPSC_WT GSE124903.SMARCA4.hiPSC_WT 502 bp overlap

SMARCB1 2 datasets

ChIP hiPSC GSE124903.SMARCB1.hiPSC 292 bp overlap

ChIP hiPSC_WT GSE124903.SMARCB1.hiPSC_WT 419 bp overlap

SMARCC1 2 datasets

ChIP hiPSC GSE124903.SMARCC1.hiPSC 726 bp overlap

ChIP hiPSC_WT GSE124903.SMARCC1.hiPSC_WT 377 bp overlap

SOX17 1 dataset

ChIP DE_D2 DED2-SOX17_Batch_II 279 bp overlap

SOX17_M 1 dataset

ChIP DE_D2 DED2-SOX17-M_Batch_II 591 bp overlap

SOX18 2 datasets

Motif DE_60h DE_60h-SOX18_MA1563.2 8 bp overlap

Motif DE_72h DE_72h-SOX18_MA1563.2 8 bp overlap

SOX2 2 datasets

ChIP hESC GSE18292.SOX2.hESC 143 bp overlap

ChIP hiPSC GSE56567.SOX2.hiPSC 321 bp overlap

SOX21 1 dataset

Motif ES_0h ES_0h-SOX21_MA0866.1 15 bp overlap

SOX8 2 datasets

Motif DE_60h DE_60h-SOX8_MA0868.3 7 bp overlap

Motif DE_72h DE_72h-SOX8_MA0868.3 7 bp overlap

ChIP WA01 ENCSR000BIR.SP1.WA01 238 bp overlap

Motif DE_60h DE_60h-SP5_MA1965.2 6 bp overlap

Motif DE_72h DE_72h-SP5_MA1965.2 6 bp overlap

Motif ES_0h ES_0h-SPIB_MA0081.3 13 bp overlap

Motif ES_0h ES_0h-Spi1_MA0080.7 13 bp overlap

Motif ES_0h ES_0h-Spz1_MA0111.1 11 bp overlap

Stat2 1 dataset

Motif ES_0h ES_0h-Stat2_MA1623.2 10 bp overlap

ChIP NPC GSE154479.TCF3.NPC 234 bp overlap

TEAD1 3 datasets

Motif ES_0h ES_0h-TEAD1_MA0090.4 9 bp overlap

ChIP WTC11 ENCFF502QUV 405 bp overlap

ChIP WTC11 ENCFF502QUV 335 bp overlap

Motif ES_0h ES_0h-TEF_MA0843.2 10 bp overlap

TFEB 2 datasets

Motif DE_60h DE_60h-TFEB_MA0692.2 8 bp overlap

Motif DE_72h DE_72h-TFEB_MA0692.2 8 bp overlap

TFEC 2 datasets

Motif DE_60h DE_60h-TFEC_MA0871.3 8 bp overlap

Motif DE_72h DE_72h-TFEC_MA0871.3 8 bp overlap

THRB 2 datasets

Motif ES_0h ES_0h-THRB_MA1574.2 13 bp overlap

Motif ES_0h ES_0h-THRB_MA1576.2 18 bp overlap

TRIM28 1 dataset

ChIP hESC GSE115387.TRIM28.hESC 227 bp overlap

TRPS1 3 datasets

Motif DE_48h DE_48h-TRPS1_MA1970.2 8 bp overlap

Motif DE_60h DE_60h-TRPS1_MA1970.2 8 bp overlap

Motif DE_72h DE_72h-TRPS1_MA1970.2 8 bp overlap

Motif ES_0h ES_0h-Tbx6_MA1567.3 9 bp overlap

USF1 2 datasets

Motif DE_60h DE_60h-USF1_MA0093.4 10 bp overlap

Motif DE_72h DE_72h-USF1_MA0093.4 10 bp overlap

Motif ES_0h ES_0h-Wt1_MA1627.2 10 bp overlap

ChIP GM12892 ENCSR000BLT.YY1.GM12892 115 bp overlap

ChIP GM12892 ENCSR000BLT.YY1.GM12892 115 bp overlap

ChIP H1 ENCFF524BTL 337 bp overlap

ChIP WA01 ENCSR000BKD.YY1.WA01 379 bp overlap

ZBTB32 1 dataset

Motif ES_0h ES_0h-ZBTB32_MA1580.1 10 bp overlap

ZBTB33 2 datasets

ChIP GM12878 ENCFF818EFA 161 bp overlap

ChIP GM12878 ENCSR542FLV.ZBTB33.GM12878 402 bp overlap

ZNF213 1 dataset

Motif ES_0h ES_0h-ZNF213_MA2121.1 12 bp overlap

ZNF214 1 dataset

Motif ES_0h ES_0h-ZNF214_MA1975.2 13 bp overlap

ZNF257 1 dataset

Motif ES_0h ES_0h-ZNF257_MA1710.2 10 bp overlap

ZNF324 4 datasets

Motif DE_48h DE_48h-ZNF324_MA1977.2 14 bp overlap

Motif DE_60h DE_60h-ZNF324_MA1977.2 14 bp overlap

Motif DE_60h DE_60h-ZNF324_MA1977.2 14 bp overlap

Motif DE_72h DE_72h-ZNF324_MA1977.2 14 bp overlap

ZNF416 1 dataset

Motif ES_0h ES_0h-ZNF416_MA1979.2 10 bp overlap

ZNF449 3 datasets

Motif DE_48h DE_48h-ZNF449_MA1656.2 10 bp overlap

Motif DE_60h DE_60h-ZNF449_MA1656.2 10 bp overlap

Motif DE_72h DE_72h-ZNF449_MA1656.2 10 bp overlap

ZNF460 2 datasets

Motif DE_60h DE_60h-ZNF460_MA1596.1 16 bp overlap

Motif DE_72h DE_72h-ZNF460_MA1596.1 16 bp overlap

ZNF462 2 datasets

ChIP GM23338 ENCFF896CCA 251 bp overlap

ChIP GM23338 ENCSR334UWP.ZNF462.GM23338 372 bp overlap

ZNF75A 1 dataset

Motif ES_0h ES_0h-ZNF75A_MA2097.1 12 bp overlap