chr12 : 65,638,328 – 65,638,825
497 bp 85 TFs 2 linked genes
This 497 bp open chromatin element is linked to HMGA2 and HMGA2-AS1 and is bound by 85 transcription factors.
Linked Genes
2 genes
Gene↕ Expression Dist. to TSS↑ Distance↕ Link type↕
HMGA2 185.9 kb Distal Multiome
HMGA2-AS1 243.5 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.

View limited to ±500 kb around this element.
For the full data, please see the UCSC track linked below.
chr12:65,633,328 – 65,643,825
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
85 transcription factors
Source
Cell type
ASCL1 4 datasets
Motif DE_36h DE_36h-ASCL1_MA1631.2 9 bp overlap
Motif DE_48h DE_48h-ASCL1_MA1631.2 9 bp overlap
Motif DE_60h DE_60h-ASCL1_MA1631.2 9 bp overlap
ChIP NCI-H82 GSE69394.ASCL1.NCI-H82 224 bp overlap
BRD4 7 datasets
ChIP HCT-116 GSE73319.BRD4.HCT-116 387 bp overlap
ChIP PC-3 GSE137207.BRD4.PC-3 283 bp overlap
ChIP PC-3_GDC-R GSE137207.BRD4.PC-3_GDC-R 290 bp overlap
ChIP PC-3_GDC-R_SAHA GSE137207.BRD4.PC-3_GDC-R_SAHA 351 bp overlap
ChIP RH4_shCHD4 GSE140115.BRD4.RH4_shCHD4 270 bp overlap
ChIP SUM1315_DMSO GSE63581.BRD4.SUM1315_DMSO 261 bp overlap
ChIP keratinocyte GSE140992.BRD4.keratinocyte 224 bp overlap
BRD9 1 dataset
ChIP G-401 GSE120234.BRD9.G-401 340 bp overlap
CBFA2T2 2 datasets
ChIP K-562 ENCSR699PVC.CBFA2T2.K-562 286 bp overlap
ChIP K562 ENCFF963TXY 381 bp overlap
CBFA2T3 2 datasets
ChIP K-562 ENCSR697YLJ.CBFA2T3.K-562 323 bp overlap
ChIP K562 ENCFF673OEZ 263 bp overlap
CDK8 1 dataset
ChIP HCT-116_NOMO GSE38258.CDK8.HCT-116_NOMO 199 bp overlap
CHD4 1 dataset
ChIP 501-mel GSE134848.CHD4.501-mel 168 bp overlap
CREM 1 dataset
ChIP K-562 ENCSR077DKV.CREM.K-562 100 bp overlap
CTCF 3 datasets
Motif DE_36h DE_36h-CTCF_MA1930.2 33 bp overlap
Motif DE_48h DE_48h-CTCF_MA1930.2 33 bp overlap
Motif DE_60h DE_60h-CTCF_MA1930.2 33 bp overlap
E2F6 1 dataset
ChIP K-562 ENCSR000BLI.E2F6.K-562 96 bp overlap
EOMES 1 dataset
ChIP hESC GSE26097.EOMES.hESC 358 bp overlap
ETV5::FIGLA 3 datasets
Motif DE_36h DE_36h-ETV5FIGLA_MA1945.2 14 bp overlap
Motif DE_48h DE_48h-ETV5FIGLA_MA1945.2 14 bp overlap
Motif DE_60h DE_60h-ETV5FIGLA_MA1945.2 14 bp overlap
FIGLA 6 datasets
Motif DE_36h DE_36h-FIGLA_MA0820.2 6 bp overlap
Motif DE_36h DE_36h-FIGLA_MA0820.2 6 bp overlap
Motif DE_48h DE_48h-FIGLA_MA0820.2 6 bp overlap
Motif DE_48h DE_48h-FIGLA_MA0820.2 6 bp overlap
Motif DE_60h DE_60h-FIGLA_MA0820.2 6 bp overlap
Motif DE_60h DE_60h-FIGLA_MA0820.2 6 bp overlap
FOXA2 2 datasets
ChIP DE DE-FOXA2-1 351 bp overlap
ChIP DE DE-FOXA2-2 337 bp overlap
GATA4 2 datasets
ChIP DE DE-GATA4-1 497 bp overlap
ChIP DE DE-GATA4-2 497 bp overlap
GATA6 9 datasets
ChIP DE DE-GATA6-1 475 bp overlap
ChIP DE DE-GATA6-2 497 bp overlap
ChIP DE_D1 S09-DE-d1-GATA6-exp1 380 bp overlap
ChIP DE_D1 S14-DE-d1-GATA6-exp1 422 bp overlap
ChIP DE_D1 S41-DE-d1-GATA6-exp2 449 bp overlap
ChIP DE_D2 S55-DE-d2-GATA6-exp2 491 bp overlap
ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 413 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.GATA6.HUES-8_DE_ctrl 450 bp overlap
ChIP endoderm_KO GSE117136.GATA6.endoderm_KO 448 bp overlap
Gli1 3 datasets
Motif DE_36h DE_36h-Gli1_MA1990.2 10 bp overlap
Motif DE_48h DE_48h-Gli1_MA1990.2 10 bp overlap
Motif DE_60h DE_60h-Gli1_MA1990.2 10 bp overlap
Gli2 6 datasets
Motif DE_36h DE_36h-Gli2_MA0734.4 9 bp overlap
Motif DE_36h DE_36h-Gli2_MA0734.4 9 bp overlap
Motif DE_48h DE_48h-Gli2_MA0734.4 9 bp overlap
Motif DE_48h DE_48h-Gli2_MA0734.4 9 bp overlap
Motif DE_60h DE_60h-Gli2_MA0734.4 9 bp overlap
Motif DE_60h DE_60h-Gli2_MA0734.4 9 bp overlap
HAND2 3 datasets
Motif DE_36h DE_36h-HAND2_MA1638.2 6 bp overlap
Motif DE_48h DE_48h-HAND2_MA1638.2 6 bp overlap
Motif DE_60h DE_60h-HAND2_MA1638.2 6 bp overlap
HDAC1 1 dataset
ChIP PC-3 GSE147455.HDAC1.PC-3 131 bp overlap
HDAC2 5 datasets
ChIP K-562 ENCSR893WSB.HDAC2.K-562 192 bp overlap
ChIP K562 ENCFF744ALD 421 bp overlap
ChIP PC-3 GSE147455.HDAC2.PC-3 132 bp overlap
ChIP RH4_DMSO-6H GSE116344.HDAC2.RH4_DMSO-6H 205 bp overlap
ChIP RH4_Entinostat-6H GSE116344.HDAC2.RH4_Entinostat-6H 244 bp overlap
HDAC3 1 dataset
ChIP RH4_DMSO-6H GSE116344.HDAC3.RH4_DMSO-6H 194 bp overlap
HOXB13 1 dataset
ChIP G-401 GSE65381.HOXB13.G-401 385 bp overlap
KLF17 3 datasets
Motif DE_36h DE_36h-KLF17_MA1514.2 14 bp overlap
Motif DE_48h DE_48h-KLF17_MA1514.2 14 bp overlap
Motif DE_60h DE_60h-KLF17_MA1514.2 14 bp overlap
MAX 2 datasets
ChIP K562 ENCFF524IJO 397 bp overlap
ChIP SK-N-SH ENCSR000BVD.MAX.SK-N-SH 147 bp overlap
MEIS1 3 datasets
Motif DE_36h DE_36h-MEIS1_MA0498.3 5 bp overlap
Motif DE_48h DE_48h-MEIS1_MA0498.3 5 bp overlap
Motif DE_60h DE_60h-MEIS1_MA0498.3 5 bp overlap
MEIS2 3 datasets
Motif DE_36h DE_36h-MEIS2_MA0774.1 8 bp overlap
Motif DE_48h DE_48h-MEIS2_MA0774.1 8 bp overlap
Motif DE_60h DE_60h-MEIS2_MA0774.1 8 bp overlap
MEIS3 3 datasets
Motif DE_36h DE_36h-MEIS3_MA0775.2 7 bp overlap
Motif DE_48h DE_48h-MEIS3_MA0775.2 7 bp overlap
Motif DE_60h DE_60h-MEIS3_MA0775.2 7 bp overlap
MSC 3 datasets
Motif DE_36h DE_36h-MSC_MA0665.1 10 bp overlap
Motif DE_48h DE_48h-MSC_MA0665.1 10 bp overlap
Motif DE_60h DE_60h-MSC_MA0665.1 10 bp overlap
MXI1 6 datasets
Motif DE_36h DE_36h-MXI1_MA1108.3 6 bp overlap
Motif DE_36h DE_36h-MXI1_MA1108.3 6 bp overlap
Motif DE_48h DE_48h-MXI1_MA1108.3 6 bp overlap
Motif DE_48h DE_48h-MXI1_MA1108.3 6 bp overlap
Motif DE_60h DE_60h-MXI1_MA1108.3 6 bp overlap
Motif DE_60h DE_60h-MXI1_MA1108.3 6 bp overlap
MYB 2 datasets
ChIP THP-1 GSE90769.MYB.THP-1 271 bp overlap
ChIP THP-1_OG86 GSE90769.MYB.THP-1_OG86 187 bp overlap
MYF6 3 datasets
Motif DE_36h DE_36h-MYF6_MA0667.1 10 bp overlap
Motif DE_48h DE_48h-MYF6_MA0667.1 10 bp overlap
Motif DE_60h DE_60h-MYF6_MA0667.1 10 bp overlap
MYOD1 7 datasets
Motif DE_36h DE_36h-MYOD1_MA0499.3 9 bp overlap
Motif DE_48h DE_48h-MYOD1_MA0499.3 9 bp overlap
Motif DE_60h DE_60h-MYOD1_MA0499.3 9 bp overlap
ChIP RD GSE137168.MYOD1.RD 251 bp overlap
ChIP RH30_DMSO GSE85169.MYOD1.RH30_DMSO 238 bp overlap
ChIP RH4 GSE83726.MYOD1.RH4 225 bp overlap
ChIP rhabdomyosarcoma GSE50413.MYOD1.rhabdomyosarcoma 170 bp overlap
NEUROD1 3 datasets
ChIP D283-Med GSE92582.NEUROD1.D283-Med 302 bp overlap
ChIP D341-Med_shGFP GSE92582.NEUROD1.D341-Med_shGFP 261 bp overlap
ChIP D341-Med_shNEUROD1-1579 GSE92582.NEUROD1.D341-Med_shNEUROD1-1579 219 bp overlap
NEUROG2 3 datasets
Motif DE_36h DE_36h-NEUROG2_MA1642.2 7 bp overlap
Motif DE_48h DE_48h-NEUROG2_MA1642.2 7 bp overlap
Motif DE_60h DE_60h-NEUROG2_MA1642.2 7 bp overlap
NHLH2 3 datasets
Motif DE_36h DE_36h-NHLH2_MA1529.2 16 bp overlap
Motif DE_48h DE_48h-NHLH2_MA1529.2 16 bp overlap
Motif DE_60h DE_60h-NHLH2_MA1529.2 16 bp overlap
NR1I3 1 dataset
Motif DE_60h DE_60h-NR1I3_MA1534.2 8 bp overlap
NUTM1 1 dataset
ChIP embryonic-kidney_induced GSE133122.NUTM1.embryonic-kidney_induced 284 bp overlap
PAX3-FOXO1 1 dataset
ChIP RH4 GSE140115.PAX3-FOXO1.RH4 273 bp overlap
PKNOX2 3 datasets
Motif DE_36h DE_36h-PKNOX2_MA0783.1 12 bp overlap
Motif DE_48h DE_48h-PKNOX2_MA0783.1 12 bp overlap
Motif DE_60h DE_60h-PKNOX2_MA0783.1 12 bp overlap
PLAG1 1 dataset
ChIP K-562 GSE111469.PLAG1.K-562 267 bp overlap
PLAGL2 2 datasets
Motif DE_48h DE_48h-PLAGL2_MA1548.2 8 bp overlap
Motif DE_60h DE_60h-PLAGL2_MA1548.2 8 bp overlap
POU5F1 1 dataset
ChIP BJ_INDUCED GSE36570.POU5F1.BJ_INDUCED 154 bp overlap
Ptf1A 9 datasets
Motif DE_36h DE_36h-Ptf1A_MA1618.2 9 bp overlap
Motif DE_36h DE_36h-Ptf1A_MA1620.2 8 bp overlap
Motif DE_36h DE_36h-Ptf1A_MA1620.2 8 bp overlap
Motif DE_48h DE_48h-Ptf1A_MA1618.2 9 bp overlap
Motif DE_48h DE_48h-Ptf1A_MA1620.2 8 bp overlap
Motif DE_48h DE_48h-Ptf1A_MA1620.2 8 bp overlap
Motif DE_60h DE_60h-Ptf1A_MA1618.2 9 bp overlap
Motif DE_60h DE_60h-Ptf1A_MA1620.2 8 bp overlap
Motif DE_60h DE_60h-Ptf1A_MA1620.2 8 bp overlap
RELA 1 dataset
ChIP aortic-endothelial-cell_IL1B_D26 GSE139377.RELA.aortic-endothelial-cell_IL1B_D26 168 bp overlap
Runx1 3 datasets
Motif DE_36h DE_36h-Runx1_MA0002.3 9 bp overlap
Motif DE_48h DE_48h-Runx1_MA0002.3 9 bp overlap
Motif DE_60h DE_60h-Runx1_MA0002.3 9 bp overlap
SMAD2-3 1 dataset
ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 448 bp overlap
SMAD2_3 2 datasets
ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 442 bp overlap
ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 471 bp overlap
SMAD3 4 datasets
Motif DE_36h DE_36h-SMAD3_MA0795.1 10 bp overlap
Motif DE_48h DE_48h-SMAD3_MA0795.1 10 bp overlap
Motif DE_60h DE_60h-SMAD3_MA0795.1 10 bp overlap
ChIP endoderm GSE29422.SMAD3.endoderm 184 bp overlap
SMAD4 1 dataset
ChIP endoderm GSE29422.SMAD4.endoderm 146 bp overlap
SMAD5 3 datasets
Motif DE_36h DE_36h-SMAD5_MA1557.1 10 bp overlap
Motif DE_48h DE_48h-SMAD5_MA1557.1 10 bp overlap
Motif DE_60h DE_60h-SMAD5_MA1557.1 10 bp overlap
SMARCA4 2 datasets
ChIP 501-mel_SHCTR GSE61965.SMARCA4.501-mel_SHCTR 292 bp overlap
ChIP TTC-1240_empty GSE124903.SMARCA4.TTC-1240_empty 204 bp overlap
SMARCC1 1 dataset
ChIP Aska-SS_shSSX GSE108025.SMARCC1.Aska-SS_shSSX 66 bp overlap
SNAI1 3 datasets
Motif DE_36h DE_36h-SNAI1_MA1558.2 7 bp overlap
Motif DE_48h DE_48h-SNAI1_MA1558.2 7 bp overlap
Motif DE_60h DE_60h-SNAI1_MA1558.2 7 bp overlap
SNAI2 3 datasets
Motif DE_36h DE_36h-SNAI2_MA0745.3 8 bp overlap
Motif DE_48h DE_48h-SNAI2_MA0745.3 8 bp overlap
Motif DE_60h DE_60h-SNAI2_MA0745.3 8 bp overlap
SNAI3 6 datasets
Motif DE_36h DE_36h-SNAI3_MA1559.2 9 bp overlap
Motif DE_36h DE_36h-SNAI3_MA1559.2 9 bp overlap
Motif DE_48h DE_48h-SNAI3_MA1559.2 9 bp overlap
Motif DE_48h DE_48h-SNAI3_MA1559.2 9 bp overlap
Motif DE_60h DE_60h-SNAI3_MA1559.2 9 bp overlap
Motif DE_60h DE_60h-SNAI3_MA1559.2 9 bp overlap
SOX17_M 1 dataset
ChIP DE_D2 DED2-SOX17-M_Batch_II 346 bp overlap
SP5 3 datasets
Motif DE_36h DE_36h-SP5_MA1965.2 6 bp overlap
Motif DE_48h DE_48h-SP5_MA1965.2 6 bp overlap
Motif DE_60h DE_60h-SP5_MA1965.2 6 bp overlap
SPI1 1 dataset
ChIP primary-monocyte_donorA_ncMO GSE128834.SPI1.primary-monocyte_donorA_ncMO 84 bp overlap
Smad4 3 datasets
Motif DE_36h DE_36h-Smad4_MA1153.2 7 bp overlap
Motif DE_48h DE_48h-Smad4_MA1153.2 7 bp overlap
Motif DE_60h DE_60h-Smad4_MA1153.2 7 bp overlap
T 2 datasets
ChIP H9_ENDODERM GSE60606.T.H9_ENDODERM 249 bp overlap
ChIP H9_MESODERM GSE60606.T.H9_MESODERM 183 bp overlap
TAL1 1 dataset
ChIP K-562 GSE107726.TAL1.K-562 187 bp overlap
TBX5 3 datasets
Motif DE_36h DE_36h-TBX5_MA0807.1 8 bp overlap
Motif DE_48h DE_48h-TBX5_MA0807.1 8 bp overlap
Motif DE_60h DE_60h-TBX5_MA0807.1 8 bp overlap
TCF12 3 datasets
Motif DE_36h DE_36h-TCF12_MA1648.2 7 bp overlap
Motif DE_48h DE_48h-TCF12_MA1648.2 7 bp overlap
Motif DE_60h DE_60h-TCF12_MA1648.2 7 bp overlap
TCF3 3 datasets
Motif DE_36h DE_36h-TCF3_MA0522.4 7 bp overlap
Motif DE_48h DE_48h-TCF3_MA0522.4 7 bp overlap
Motif DE_60h DE_60h-TCF3_MA0522.4 7 bp overlap
TCF4 3 datasets
Motif DE_36h DE_36h-TCF4_MA0830.3 8 bp overlap
Motif DE_48h DE_48h-TCF4_MA0830.3 8 bp overlap
Motif DE_60h DE_60h-TCF4_MA0830.3 8 bp overlap
TFEB 3 datasets
Motif DE_36h DE_36h-TFEB_MA0692.2 8 bp overlap
Motif DE_48h DE_48h-TFEB_MA0692.2 8 bp overlap
Motif DE_60h DE_60h-TFEB_MA0692.2 8 bp overlap
TGIF1 3 datasets
Motif DE_36h DE_36h-TGIF1_MA0796.1 12 bp overlap
Motif DE_48h DE_48h-TGIF1_MA0796.1 12 bp overlap
Motif DE_60h DE_60h-TGIF1_MA0796.1 12 bp overlap
TGIF2 3 datasets
Motif DE_36h DE_36h-TGIF2_MA0797.1 12 bp overlap
Motif DE_48h DE_48h-TGIF2_MA0797.1 12 bp overlap
Motif DE_60h DE_60h-TGIF2_MA0797.1 12 bp overlap
TGIF2LX 3 datasets
Motif DE_36h DE_36h-TGIF2LX_MA1571.1 12 bp overlap
Motif DE_48h DE_48h-TGIF2LX_MA1571.1 12 bp overlap
Motif DE_60h DE_60h-TGIF2LX_MA1571.1 12 bp overlap
TGIF2LY 3 datasets
Motif DE_36h DE_36h-TGIF2LY_MA1572.1 12 bp overlap
Motif DE_48h DE_48h-TGIF2LY_MA1572.1 12 bp overlap
Motif DE_60h DE_60h-TGIF2LY_MA1572.1 12 bp overlap
TWIST1 3 datasets
Motif DE_36h DE_36h-TWIST1_MA1123.3 8 bp overlap
Motif DE_48h DE_48h-TWIST1_MA1123.3 8 bp overlap
Motif DE_60h DE_60h-TWIST1_MA1123.3 8 bp overlap
WT1 1 dataset
ChIP HEK293 ENCFF906HIR 420 bp overlap
YY1 1 dataset
ChIP SK-N-SH ENCFF087JSD 284 bp overlap
ZBTB18 3 datasets
Motif DE_36h DE_36h-ZBTB18_MA0698.2 11 bp overlap
Motif DE_48h DE_48h-ZBTB18_MA0698.2 11 bp overlap
Motif DE_60h DE_60h-ZBTB18_MA0698.2 11 bp overlap
ZEB1 6 datasets
Motif DE_36h DE_36h-ZEB1_MA0103.4 6 bp overlap
Motif DE_36h DE_36h-ZEB1_MA0103.4 6 bp overlap
Motif DE_48h DE_48h-ZEB1_MA0103.4 6 bp overlap
Motif DE_48h DE_48h-ZEB1_MA0103.4 6 bp overlap
Motif DE_60h DE_60h-ZEB1_MA0103.4 6 bp overlap
Motif DE_60h DE_60h-ZEB1_MA0103.4 6 bp overlap
ZNF300 1 dataset
ChIP HEK293T GSE78099.ZNF300.HEK293T 204 bp overlap
ZNF311 1 dataset
ChIP K-562 ENCSR388ZRV.ZNF311.K-562 96 bp overlap
ZNF320 2 datasets
Motif DE_48h DE_48h-ZNF320_MA1976.2 20 bp overlap
Motif DE_60h DE_60h-ZNF320_MA1976.2 20 bp overlap
ZNF528 3 datasets
Motif DE_36h DE_36h-ZNF528_MA1597.1 17 bp overlap
Motif DE_48h DE_48h-ZNF528_MA1597.1 17 bp overlap
Motif DE_60h DE_60h-ZNF528_MA1597.1 17 bp overlap
ZNF639 2 datasets
ChIP K562 ENCFF271FQR 402 bp overlap
ChIP K562 ENCFF271FQR 190 bp overlap
ZNF692 5 datasets
Motif DE_36h DE_36h-ZNF692_MA1986.2 8 bp overlap
Motif DE_48h DE_48h-ZNF692_MA1986.2 8 bp overlap
Motif DE_48h DE_48h-ZNF692_MA1986.2 8 bp overlap
Motif DE_60h DE_60h-ZNF692_MA1986.2 8 bp overlap
Motif DE_60h DE_60h-ZNF692_MA1986.2 8 bp overlap
ZNF708 3 datasets
Motif DE_36h DE_36h-ZNF708_MA1730.2 9 bp overlap
Motif DE_48h DE_48h-ZNF708_MA1730.2 9 bp overlap
Motif DE_60h DE_60h-ZNF708_MA1730.2 9 bp overlap
ZSCAN5C 1 dataset
ChIP HEK293 ENCFF343DTU 305 bp overlap
Znf423 2 datasets
Motif DE_48h DE_48h-Znf423_MA0116.1 15 bp overlap
Motif DE_60h DE_60h-Znf423_MA0116.1 15 bp overlap
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