chr9 : 2,537,107 2,538,712
1,605 bp 82 TFs 3 linked genes
This 1.6 kb open chromatin element is linked to VLDLR-AS1, VLDLR, and KCNV2 and is bound by 82 transcription factors.
Linked Genes
3 genes
Gene Expression Dist. to TSS Distance Link type
VLDLR-AS1 83.3 kb Distal Multiome
VLDLR 83.5 kb Distal Multiome
KCNV2 179.4 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.
chr9:2,532,107 – 2,543,712
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
82 transcription factors
Source
Cell type
ATF2 3 datasets
Motif DE_36h DE_36h-ATF2_MA1632.2 10 bp overlap
Motif DE_48h DE_48h-ATF2_MA1632.2 10 bp overlap
Motif DE_60h DE_60h-ATF2_MA1632.2 10 bp overlap
BARX2 1 dataset
Motif DE_48h DE_48h-BARX2_MA1471.2 9 bp overlap
CEBPA 1 dataset
ChIP T-47D_progesterone GSE132649.CEBPA.T-47D_progesterone 156 bp overlap
CEBPB 5 datasets
ChIP A-549 ENCSR000BUB.CEBPB.A-549 60 bp overlap
ChIP A549 ENCFF235AIY 138 bp overlap
ChIP IMR-90 ENCFF468UGY 112 bp overlap
ChIP MCF-7 ENCSR000BSR.CEBPB.MCF-7 59 bp overlap
ChIP WA01 ENCSR000EBV.CEBPB.WA01 77 bp overlap
CTCF 1 dataset
ChIP anterior-temporal-cortex_adult GSE116825.CTCF.anterior-temporal-cortex_adult 165 bp overlap
Cebpa 4 datasets
ChIP BLaER1 ENCFF093OYK 278 bp overlap
ChIP BLaER1 ENCFF364PUR 228 bp overlap
ChIP BLaER1 ENCFF399AYC 292 bp overlap
ChIP BLaER1 ENCFF844FIP 227 bp overlap
Dmrt1 3 datasets
Motif DE_36h DE_36h-Dmrt1_MA1603.2 9 bp overlap
Motif DE_48h DE_48h-Dmrt1_MA1603.2 9 bp overlap
Motif DE_60h DE_60h-Dmrt1_MA1603.2 9 bp overlap
E2F6 3 datasets
Motif DE_36h DE_36h-E2F6_MA0471.3 8 bp overlap
Motif DE_48h DE_48h-E2F6_MA0471.3 8 bp overlap
Motif DE_60h DE_60h-E2F6_MA0471.3 8 bp overlap
EOMES 2 datasets
ChIP hESC GSE26097.EOMES.hESC 227 bp overlap
ChIP hESC GSE26097.EOMES.hESC 328 bp overlap
ESR1 1 dataset
ChIP Ishikawa_ETV4-KO2_Mili GSE129803.ESR1.Ishikawa_ETV4-KO2_Mili 172 bp overlap
EZH2 1 dataset
ChIP SU-DHL-5 GSE45982.EZH2.SU-DHL-5 105 bp overlap
FEZF2 3 datasets
Motif DE_36h DE_36h-FEZF2_MA2341.1 8 bp overlap
Motif DE_48h DE_48h-FEZF2_MA2341.1 8 bp overlap
Motif DE_60h DE_60h-FEZF2_MA2341.1 8 bp overlap
FOXA1 19 datasets
ChIP 22Rv1_CST_Crispr GSE123618.FOXA1.22Rv1_CST_Crispr 178 bp overlap
ChIP 22Rv1_CST_Crispr-70 GSE123618.FOXA1.22Rv1_CST_Crispr-70 285 bp overlap
ChIP 22Rv1_Dox GSE85558.FOXA1.22Rv1_Dox 192 bp overlap
ChIP A-549 ENCSR000BPX.FOXA1.A-549 176 bp overlap
ChIP A1A3_Brg1KD_Dex GSE112491.FOXA1.A1A3_Brg1KD_Dex 236 bp overlap
ChIP CFPAC-1 GSE119930.FOXA1.CFPAC-1 394 bp overlap
ChIP CFPAC-1_FOXA2-KO GSE119930.FOXA1.CFPAC-1_FOXA2-KO 340 bp overlap
ChIP LNCaP_ETOH24H GSE58428.FOXA1.LNCaP_ETOH24H 334 bp overlap
ChIP LNCaP_VEH GSE114266.FOXA1.LNCaP_VEH 208 bp overlap
ChIP MCF-7_estrogen_ab2 GSE112969.FOXA1.MCF-7_estrogen_ab2 336 bp overlap
ChIP MCF-7_vehicle_ab2 GSE112969.FOXA1.MCF-7_vehicle_ab2 280 bp overlap
ChIP PDAC_KOKLF5 GSE64557.FOXA1.PDAC_KOKLF5 301 bp overlap
ChIP T-47D_CR3flp GSE99479.FOXA1.T-47D_CR3flp 199 bp overlap
ChIP T-47D_DMSO GSE84593.FOXA1.T-47D_DMSO 222 bp overlap
ChIP T-47D_flp-ctrl GSE99479.FOXA1.T-47D_flp-ctrl 185 bp overlap
ChIP T-47D_shRNF2 GSE137579.FOXA1.T-47D_shRNF2 169 bp overlap
ChIP T-47D_shRNF2_45min GSE137579.FOXA1.T-47D_shRNF2_45min 144 bp overlap
ChIP T47D-A1-2_Dex GSE112491.FOXA1.T47D-A1-2_Dex 138 bp overlap
ChIP ZR-75-1_vehicle_ab2 GSE112969.FOXA1.ZR-75-1_vehicle_ab2 232 bp overlap
FOXA2 7 datasets
ChIP BJ1-hTERT_Mimo GSE92491.FOXA2.BJ1-hTERT_Mimo 214 bp overlap
ChIP CFPAC-1 GSE119930.FOXA2.CFPAC-1 455 bp overlap
ChIP CFPAC-1_EV GSE119930.FOXA2.CFPAC-1_EV 324 bp overlap
ChIP CFPAC-1_HNF1B-KO GSE119930.FOXA2.CFPAC-1_HNF1B-KO 254 bp overlap
ChIP CFPAC-1_HOXB8-OE GSE119930.FOXA2.CFPAC-1_HOXB8-OE 393 bp overlap
ChIP DE DE-FOXA2-1 1082 bp overlap
ChIP DE DE-FOXA2-2 1169 bp overlap
GATA4 3 datasets
ChIP DE DE-GATA4-1 389 bp overlap
ChIP DE DE-GATA4-1 765 bp overlap
ChIP DE DE-GATA4-2 1280 bp overlap
GATA6 9 datasets
ChIP DE DE-GATA6-1 400 bp overlap
ChIP DE DE-GATA6-1 600 bp overlap
ChIP DE DE-GATA6-2 1287 bp overlap
ChIP DE_D1 S14-DE-d1-GATA6-exp1 256 bp overlap
ChIP DE_D2 S55-DE-d2-GATA6-exp2 1298 bp overlap
ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 362 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.GATA6.HUES-8_DE_ctrl 267 bp overlap
ChIP endoderm_KO GSE117136.GATA6.endoderm_KO 347 bp overlap
ChIP endoderm_KO GSE117136.GATA6.endoderm_KO 510 bp overlap
GLIS1 2 datasets
Motif DE_48h DE_48h-GLIS1_MA0735.2 15 bp overlap
Motif DE_60h DE_60h-GLIS1_MA0735.2 15 bp overlap
HDAC3 2 datasets
ChIP RH4_DMSO-6H GSE116344.HDAC3.RH4_DMSO-6H 210 bp overlap
ChIP RH4_DMSO-6H GSE116344.HDAC3.RH4_DMSO-6H 193 bp overlap
HMBOX1 2 datasets
Motif DE_48h DE_48h-HMBOX1_MA0895.2 7 bp overlap
Motif DE_60h DE_60h-HMBOX1_MA0895.2 7 bp overlap
Hmx2 1 dataset
Motif DE_60h DE_60h-Hmx2_MA0897.2 15 bp overlap
INSM1 3 datasets
Motif DE_36h DE_36h-INSM1_MA0155.1 12 bp overlap
Motif DE_48h DE_48h-INSM1_MA0155.1 12 bp overlap
Motif DE_60h DE_60h-INSM1_MA0155.1 12 bp overlap
KDM1A 2 datasets
ChIP Kasumi-1_GSK690 GSE71739.KDM1A.Kasumi-1_GSK690 200 bp overlap
ChIP SKNO-1_GSK690 GSE71739.KDM1A.SKNO-1_GSK690 211 bp overlap
KLF11 1 dataset
Motif DE_60h DE_60h-KLF11_MA1512.2 10 bp overlap
KLF4 6 datasets
Motif DE_36h DE_36h-KLF4_MA0039.5 8 bp overlap
Motif DE_36h DE_36h-KLF4_MA0039.5 8 bp overlap
Motif DE_48h DE_48h-KLF4_MA0039.5 8 bp overlap
Motif DE_48h DE_48h-KLF4_MA0039.5 8 bp overlap
Motif DE_60h DE_60h-KLF4_MA0039.5 8 bp overlap
Motif DE_60h DE_60h-KLF4_MA0039.5 8 bp overlap
KLF9 1 dataset
Motif DE_60h DE_60h-KLF9_MA1107.3 11 bp overlap
KMT2A 1 dataset
ChIP THP-1 GSE79899.KMT2A.THP-1 208 bp overlap
MAF 4 datasets
Motif DE_36h DE_36h-MAF_MA1520.2 13 bp overlap
Motif DE_48h DE_48h-MAF_MA1520.2 13 bp overlap
Motif DE_60h DE_60h-MAF_MA1520.2 13 bp overlap
Motif DE_60h DE_60h-MAF_MA1520.2 13 bp overlap
MAFA 4 datasets
Motif DE_36h DE_36h-MAFA_MA1521.2 13 bp overlap
Motif DE_48h DE_48h-MAFA_MA1521.2 13 bp overlap
Motif DE_60h DE_60h-MAFA_MA1521.2 13 bp overlap
Motif DE_60h DE_60h-MAFA_MA1521.2 13 bp overlap
MEF2A 1 dataset
Motif DE_48h DE_48h-MEF2A_MA0052.5 10 bp overlap
MEF2B 1 dataset
Motif DE_48h DE_48h-MEF2B_MA0660.1 12 bp overlap
MEF2C 1 dataset
Motif DE_48h DE_48h-MEF2C_MA0497.2 11 bp overlap
MEF2D 1 dataset
Motif DE_48h DE_48h-MEF2D_MA0773.1 12 bp overlap
MGA::EVX1 3 datasets
Motif DE_36h DE_36h-MGAEVX1_MA1960.2 11 bp overlap
Motif DE_48h DE_48h-MGAEVX1_MA1960.2 11 bp overlap
Motif DE_60h DE_60h-MGAEVX1_MA1960.2 11 bp overlap
MYB 1 dataset
Motif DE_48h DE_48h-MYB_MA0100.4 6 bp overlap
Mafg 3 datasets
Motif DE_36h DE_36h-Mafg_MA0659.4 12 bp overlap
Motif DE_48h DE_48h-Mafg_MA0659.4 12 bp overlap
Motif DE_60h DE_60h-Mafg_MA0659.4 12 bp overlap
NCOA2 1 dataset
ChIP MCF-7_E2 ERP000901.NCOA2.MCF-7_E2 89 bp overlap
NR2C1 3 datasets
Motif DE_36h DE_36h-NR2C1_MA1535.2 6 bp overlap
Motif DE_48h DE_48h-NR2C1_MA1535.2 6 bp overlap
Motif DE_60h DE_60h-NR2C1_MA1535.2 6 bp overlap
NR2C2 6 datasets
Motif DE_36h DE_36h-NR2C2_MA0504.2 14 bp overlap
Motif DE_36h DE_36h-NR2C2_MA1536.2 6 bp overlap
Motif DE_48h DE_48h-NR2C2_MA0504.2 14 bp overlap
Motif DE_48h DE_48h-NR2C2_MA1536.2 6 bp overlap
Motif DE_60h DE_60h-NR2C2_MA0504.2 14 bp overlap
Motif DE_60h DE_60h-NR2C2_MA1536.2 6 bp overlap
NR2F2 3 datasets
Motif DE_36h DE_36h-NR2F2_MA1111.2 7 bp overlap
Motif DE_48h DE_48h-NR2F2_MA1111.2 7 bp overlap
Motif DE_60h DE_60h-NR2F2_MA1111.2 7 bp overlap
NR4A2 3 datasets
Motif DE_36h DE_36h-NR4A2_MA0160.3 8 bp overlap
Motif DE_48h DE_48h-NR4A2_MA0160.3 8 bp overlap
Motif DE_60h DE_60h-NR4A2_MA0160.3 8 bp overlap
Nr1H2 3 datasets
Motif DE_36h DE_36h-Nr1H2_MA1996.2 6 bp overlap
Motif DE_48h DE_48h-Nr1H2_MA1996.2 6 bp overlap
Motif DE_60h DE_60h-Nr1H2_MA1996.2 6 bp overlap
Nr1H4 3 datasets
Motif DE_36h DE_36h-Nr1H4_MA1110.3 6 bp overlap
Motif DE_48h DE_48h-Nr1H4_MA1110.3 6 bp overlap
Motif DE_60h DE_60h-Nr1H4_MA1110.3 6 bp overlap
Nr1h3 3 datasets
Motif DE_36h DE_36h-Nr1h3_MA2337.1 6 bp overlap
Motif DE_48h DE_48h-Nr1h3_MA2337.1 6 bp overlap
Motif DE_60h DE_60h-Nr1h3_MA2337.1 6 bp overlap
PAX3-FOXO1 2 datasets
ChIP RH4 GSE140115.PAX3-FOXO1.RH4 166 bp overlap
ChIP RH4 GSE140115.PAX3-FOXO1.RH4 271 bp overlap
PAX5 1 dataset
ChIP fetal_testis GSE100639.PAX5.fetal_testis 165 bp overlap
PROX1 2 datasets
Motif DE_48h DE_48h-PROX1_MA0794.1 12 bp overlap
Motif DE_60h DE_60h-PROX1_MA0794.1 12 bp overlap
Ppara 3 datasets
Motif DE_36h DE_36h-Ppara_MA2338.1 7 bp overlap
Motif DE_48h DE_48h-Ppara_MA2338.1 7 bp overlap
Motif DE_60h DE_60h-Ppara_MA2338.1 7 bp overlap
Prdm5 3 datasets
Motif DE_36h DE_36h-Prdm5_MA1999.2 11 bp overlap
Motif DE_48h DE_48h-Prdm5_MA1999.2 11 bp overlap
Motif DE_60h DE_60h-Prdm5_MA1999.2 11 bp overlap
RORA 3 datasets
Motif DE_36h DE_36h-RORA_MA0071.1 10 bp overlap
Motif DE_48h DE_48h-RORA_MA0071.1 10 bp overlap
Motif DE_60h DE_60h-RORA_MA0071.1 10 bp overlap
RORB 3 datasets
Motif DE_36h DE_36h-RORB_MA1150.2 10 bp overlap
Motif DE_48h DE_48h-RORB_MA1150.2 10 bp overlap
Motif DE_60h DE_60h-RORB_MA1150.2 10 bp overlap
Rfx6 1 dataset
Motif DE_60h DE_60h-Rfx6_MA1724.2 9 bp overlap
SCRT1 1 dataset
Motif DE_48h DE_48h-SCRT1_MA0743.3 10 bp overlap
SCRT2 1 dataset
Motif DE_48h DE_48h-SCRT2_MA0744.3 10 bp overlap
SMAD2 2 datasets
ChIP endoderm GSE29422.SMAD2.endoderm 149 bp overlap
ChIP endoderm GSE29422.SMAD2.endoderm 151 bp overlap
SMAD2-3 2 datasets
ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 324 bp overlap
ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 703 bp overlap
SMAD2_3 4 datasets
ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 434 bp overlap
ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 609 bp overlap
ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 182 bp overlap
ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 707 bp overlap
SMAD3 1 dataset
ChIP endoderm GSE29422.SMAD3.endoderm 181 bp overlap
SMAD4 1 dataset
ChIP endoderm GSE29422.SMAD4.endoderm 141 bp overlap
SMARCA4 1 dataset
ChIP CTV-1_FLAG GSE128835.SMARCA4.CTV-1_FLAG 213 bp overlap
SOX17 2 datasets
ChIP DE_D2 DED2-SOX17_Batch_II 229 bp overlap
ChIP DE_D2 DED2-SOX17_Batch_II 624 bp overlap
SOX17_M 1 dataset
ChIP DE_D2 DED2-SOX17-M_Batch_II 1297 bp overlap
SOX8 1 dataset
ChIP RH4 GSE116344.SOX8.RH4 336 bp overlap
SPI1 2 datasets
ChIP CTV-1_delQ GSE128835.SPI1.CTV-1_delQ 164 bp overlap
ChIP NCI-H929 GSE56857.SPI1.NCI-H929 105 bp overlap
SPIB 1 dataset
ChIP OCI-Ly3_SHCTR GSE56857.SPIB.OCI-Ly3_SHCTR 222 bp overlap
Six4 1 dataset
Motif DE_60h DE_60h-Six4_MA2001.2 7 bp overlap
Sox17 2 datasets
Motif DE_48h DE_48h-Sox17_MA0078.3 10 bp overlap
Motif DE_60h DE_60h-Sox17_MA0078.3 10 bp overlap
Sox7 2 datasets
Motif DE_48h DE_48h-Sox7_MA2095.1 10 bp overlap
Motif DE_60h DE_60h-Sox7_MA2095.1 10 bp overlap
T 1 dataset
ChIP H9_ENDODERM GSE60606.T.H9_ENDODERM 224 bp overlap
TFAP2A 1 dataset
Motif DE_60h DE_60h-TFAP2A_MA0003.5 9 bp overlap
TFAP2C 1 dataset
Motif DE_60h DE_60h-TFAP2C_MA0814.3 9 bp overlap
THRA 3 datasets
Motif DE_36h DE_36h-THRA_MA1969.2 18 bp overlap
Motif DE_48h DE_48h-THRA_MA1969.2 18 bp overlap
Motif DE_60h DE_60h-THRA_MA1969.2 18 bp overlap
THRB 3 datasets
Motif DE_36h DE_36h-THRB_MA1576.2 18 bp overlap
Motif DE_48h DE_48h-THRB_MA1576.2 18 bp overlap
Motif DE_60h DE_60h-THRB_MA1576.2 18 bp overlap
ZBTB12 3 datasets
Motif DE_36h DE_36h-ZBTB12_MA1649.2 7 bp overlap
Motif DE_48h DE_48h-ZBTB12_MA1649.2 7 bp overlap
Motif DE_60h DE_60h-ZBTB12_MA1649.2 7 bp overlap
ZNF140 3 datasets
Motif DE_36h DE_36h-ZNF140_MA1589.2 19 bp overlap
Motif DE_48h DE_48h-ZNF140_MA1589.2 19 bp overlap
Motif DE_60h DE_60h-ZNF140_MA1589.2 19 bp overlap
ZNF189 2 datasets
Motif DE_48h DE_48h-ZNF189_MA1725.2 9 bp overlap
Motif DE_60h DE_60h-ZNF189_MA1725.2 9 bp overlap
ZNF324 3 datasets
Motif DE_36h DE_36h-ZNF324_MA1977.2 14 bp overlap
Motif DE_48h DE_48h-ZNF324_MA1977.2 14 bp overlap
Motif DE_60h DE_60h-ZNF324_MA1977.2 14 bp overlap
ZNF341 2 datasets
Motif DE_48h DE_48h-ZNF341_MA1655.2 8 bp overlap
Motif DE_60h DE_60h-ZNF341_MA1655.2 8 bp overlap
ZNF652 4 datasets
Motif DE_36h DE_36h-ZNF652_MA1657.2 9 bp overlap
Motif DE_48h DE_48h-ZNF652_MA1657.2 9 bp overlap
Motif DE_48h DE_48h-ZNF652_MA1657.2 9 bp overlap
Motif DE_60h DE_60h-ZNF652_MA1657.2 9 bp overlap
ZNF770 1 dataset
Motif DE_60h DE_60h-ZNF770_MA2099.1 8 bp overlap
ZNF8 2 datasets
Motif DE_48h DE_48h-ZNF8_MA1718.1 20 bp overlap
Motif DE_60h DE_60h-ZNF8_MA1718.1 20 bp overlap
ZNF85 5 datasets
Motif DE_36h DE_36h-ZNF85_MA1720.2 12 bp overlap
Motif DE_48h DE_48h-ZNF85_MA1720.2 12 bp overlap
Motif DE_48h DE_48h-ZNF85_MA1720.2 12 bp overlap
Motif DE_60h DE_60h-ZNF85_MA1720.2 12 bp overlap
Motif DE_60h DE_60h-ZNF85_MA1720.2 12 bp overlap