chr12 : 39,138,349 39,138,707
358 bp 85 TFs 1 linked gene
This 358 bp open chromatin element is linked to LINC02406 and is bound by 85 transcription factors.
Linked Genes
1 gene
Gene Expression Dist. to TSS Distance Link type
LINC02406 6.8 kb Proximal Proximity
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.
chr12:39,133,349 – 39,143,707
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
Arid3a 1 dataset
Motif DE_48h DE_48h-Arid3a_MA0151.1 6 bp overlap
BARX1 2 datasets
Motif DE_48h DE_48h-BARX1_MA0875.2 6 bp overlap
Motif DE_48h DE_48h-BARX1_MA0875.2 6 bp overlap
BARX2 1 dataset
Motif DE_48h DE_48h-BARX2_MA1471.2 9 bp overlap
BRD4 3 datasets
ChIP cortical-interneuron_R133C_KCl-neg_JQ1-neg GSE117508.BRD4.cortical-interneuron_R133C_KCl-neg_JQ1-neg 272 bp overlap
ChIP cortical-interneuron_R133C_KCl-pos_JQ1-neg GSE117508.BRD4.cortical-interneuron_R133C_KCl-pos_JQ1-neg 320 bp overlap
ChIP cortical-interneuron_R133C_KCl-pos_JQ1-pos GSE117508.BRD4.cortical-interneuron_R133C_KCl-pos_JQ1-pos 223 bp overlap
BSX 2 datasets
Motif DE_48h DE_48h-BSX_MA0876.2 6 bp overlap
Motif DE_48h DE_48h-BSX_MA0876.2 6 bp overlap
CREB5 1 dataset
ChIP LNCaP GSE137775.CREB5.LNCaP 203 bp overlap
DLX1 2 datasets
Motif DE_48h DE_48h-DLX1_MA0879.3 6 bp overlap
Motif DE_48h DE_48h-DLX1_MA0879.3 6 bp overlap
DLX6 2 datasets
Motif DE_48h DE_48h-DLX6_MA0882.2 6 bp overlap
Motif DE_48h DE_48h-DLX6_MA0882.2 6 bp overlap
Dlx2 1 dataset
Motif DE_48h DE_48h-Dlx2_MA0885.3 8 bp overlap
Dlx3 2 datasets
Motif DE_48h DE_48h-Dlx3_MA0880.2 6 bp overlap
Motif DE_48h DE_48h-Dlx3_MA0880.2 6 bp overlap
Dlx4 2 datasets
Motif DE_48h DE_48h-Dlx4_MA0881.2 6 bp overlap
Motif DE_48h DE_48h-Dlx4_MA0881.2 6 bp overlap
Dlx5 1 dataset
Motif DE_48h DE_48h-Dlx5_MA1476.3 8 bp overlap
EBF1 1 dataset
Motif DE_48h DE_48h-EBF1_MA0154.5 11 bp overlap
EOMES 1 dataset
ChIP hESC GSE26097.EOMES.hESC 168 bp overlap
EP300 1 dataset
ChIP SK-N-SH ENCSR000EHV.EP300.SK-N-SH 136 bp overlap
Ebf4 1 dataset
Motif DE_48h DE_48h-Ebf4_MA2122.1 11 bp overlap
GATA2 1 dataset
ChIP SK-N-SH ENCSR706VOO.GATA2.SK-N-SH 174 bp overlap
GATA4 3 datasets
ChIP DE DE-GATA4-1 358 bp overlap
ChIP DE DE-GATA4-2 308 bp overlap
ChIP foregut GSE117136.GATA4.foregut 358 bp overlap
GATA6 6 datasets
ChIP DE DE-GATA6-1 358 bp overlap
ChIP DE DE-GATA6-2 278 bp overlap
ChIP DE_D2 S55-DE-d2-GATA6-exp2 346 bp overlap
ChIP endoderm_KO GSE117136.GATA6.endoderm_KO 340 bp overlap
ChIP foregut GSE117136.GATA6.foregut 286 bp overlap
ChIP foregut_KO GSE117136.GATA6.foregut_KO 353 bp overlap
GBX2 2 datasets
Motif DE_48h DE_48h-GBX2_MA0890.2 6 bp overlap
Motif DE_48h DE_48h-GBX2_MA0890.2 6 bp overlap
HAND2 2 datasets
ChIP CLB-Ga GSE90683.HAND2.CLB-Ga 291 bp overlap
ChIP SK-N-BE2-C GSE94822.HAND2.SK-N-BE2-C 272 bp overlap
HESX1 2 datasets
Motif DE_48h DE_48h-HESX1_MA0894.2 6 bp overlap
Motif DE_48h DE_48h-HESX1_MA0894.2 6 bp overlap
HIC2 1 dataset
Motif DE_48h DE_48h-HIC2_MA0738.2 6 bp overlap
HNF1B 1 dataset
ChIP foregut GSE117136.HNF1B.foregut 260 bp overlap
HOXA10 1 dataset
Motif DE_48h DE_48h-HOXA10_MA0899.2 9 bp overlap
HOXA6 1 dataset
Motif DE_48h DE_48h-HOXA6_MA1497.2 7 bp overlap
HOXA7 2 datasets
Motif DE_48h DE_48h-HOXA7_MA1498.3 6 bp overlap
Motif DE_48h DE_48h-HOXA7_MA1498.3 6 bp overlap
HOXB13 1 dataset
Motif DE_48h DE_48h-HOXB13_MA0901.3 9 bp overlap
HOXB6 1 dataset
Motif DE_48h DE_48h-HOXB6_MA1500.2 7 bp overlap
HOXB7 1 dataset
Motif DE_48h DE_48h-HOXB7_MA1501.2 7 bp overlap
HOXB8 1 dataset
Motif DE_48h DE_48h-HOXB8_MA1502.2 7 bp overlap
HOXD3 1 dataset
Motif DE_48h DE_48h-HOXD3_MA0912.2 8 bp overlap
HOXD8 1 dataset
Motif DE_48h DE_48h-HOXD8_MA0910.3 7 bp overlap
HOXD9 1 dataset
Motif DE_48h DE_48h-HOXD9_MA0913.3 9 bp overlap
Hmx1 1 dataset
Motif DE_48h DE_48h-Hmx1_MA0896.2 9 bp overlap
Hmx3 1 dataset
Motif DE_48h DE_48h-Hmx3_MA0898.2 9 bp overlap
ISL1 1 dataset
ChIP SK-N-BE2-C GSE94822.ISL1.SK-N-BE2-C 275 bp overlap
KDM1A 1 dataset
ChIP SH-SY5Y_B3 GSE58258.KDM1A.SH-SY5Y_B3 227 bp overlap
KLF10 1 dataset
Motif DE_48h DE_48h-KLF10_MA1511.2 9 bp overlap
KLF12 1 dataset
Motif DE_48h DE_48h-KLF12_MA0742.2 9 bp overlap
KLF14 1 dataset
Motif DE_48h DE_48h-KLF14_MA0740.2 9 bp overlap
LBX2 2 datasets
Motif DE_48h DE_48h-LBX2_MA0699.2 6 bp overlap
Motif DE_48h DE_48h-LBX2_MA0699.2 6 bp overlap
LHX2 2 datasets
Motif DE_48h DE_48h-LHX2_MA0700.3 6 bp overlap
Motif DE_48h DE_48h-LHX2_MA0700.3 6 bp overlap
MEIS1 1 dataset
Motif DE_48h DE_48h-MEIS1_MA0498.3 5 bp overlap
MSX1 2 datasets
Motif DE_48h DE_48h-MSX1_MA0666.3 6 bp overlap
Motif DE_48h DE_48h-MSX1_MA0666.3 6 bp overlap
MSX2 2 datasets
Motif DE_48h DE_48h-MSX2_MA0708.3 6 bp overlap
Motif DE_48h DE_48h-MSX2_MA0708.3 6 bp overlap
MYB 2 datasets
Motif DE_48h DE_48h-MYB_MA0100.4 6 bp overlap
Motif DE_48h DE_48h-MYB_MA0100.4 6 bp overlap
MYCN 1 dataset
ChIP SK-N-BE2-C GSE94822.MYCN.SK-N-BE2-C 155 bp overlap
Msx3 2 datasets
Motif DE_48h DE_48h-Msx3_MA0709.2 6 bp overlap
Motif DE_48h DE_48h-Msx3_MA0709.2 6 bp overlap
NFIA 1 dataset
Motif DE_48h DE_48h-NFIA_MA0670.2 6 bp overlap
NFIX 1 dataset
Motif DE_48h DE_48h-NFIX_MA0671.2 6 bp overlap
Nobox 2 datasets
Motif DE_48h DE_48h-Nobox_MA0125.2 6 bp overlap
Motif DE_48h DE_48h-Nobox_MA0125.2 6 bp overlap
ONECUT3 1 dataset
Motif DE_48h DE_48h-ONECUT3_MA0757.2 12 bp overlap
PHOX2B 2 datasets
ChIP CLB-Ga GSE90683.PHOX2B.CLB-Ga 358 bp overlap
ChIP SK-N-BE2-C GSE94822.PHOX2B.SK-N-BE2-C 259 bp overlap
POU2F2 1 dataset
Motif DE_48h DE_48h-POU2F2_MA0507.3 13 bp overlap
POU5F1 1 dataset
ChIP hESC_NAIVE GSE69646.POU5F1.hESC_NAIVE 349 bp overlap
Prdm5 1 dataset
Motif DE_48h DE_48h-Prdm5_MA1999.2 11 bp overlap
RARA 2 datasets
ChIP hiPSC_D2 GSE132532.RARA.hiPSC_D2 200 bp overlap
ChIP hiPSC_D4 GSE109172.RARA.hiPSC_D4 262 bp overlap
RAX 2 datasets
Motif DE_48h DE_48h-RAX_MA0718.2 6 bp overlap
Motif DE_48h DE_48h-RAX_MA0718.2 6 bp overlap
SMAD2-3 1 dataset
ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 345 bp overlap
SOX15 1 dataset
Motif DE_48h DE_48h-SOX15_MA1152.2 7 bp overlap
SOX17 1 dataset
ChIP DE_D2 DED2-SOX17_Batch_II 277 bp overlap
SOX17_M 1 dataset
ChIP DE_D2 DED2-SOX17-M_Batch_II 358 bp overlap
SOX18 1 dataset
Motif DE_48h DE_48h-SOX18_MA1563.2 8 bp overlap
SOX2 1 dataset
ChIP RENVM GSE49404.SOX2.RENVM 234 bp overlap
SOX8 1 dataset
Motif DE_48h DE_48h-SOX8_MA0868.3 7 bp overlap
SOX9 1 dataset
Motif DE_48h DE_48h-SOX9_MA0077.2 8 bp overlap
SP4 1 dataset
Motif DE_48h DE_48h-SP4_MA0685.2 9 bp overlap
SRY 1 dataset
Motif DE_48h DE_48h-SRY_MA0084.2 7 bp overlap
Sox17 1 dataset
Motif DE_48h DE_48h-Sox17_MA0078.3 10 bp overlap
Sox5 1 dataset
Motif DE_48h DE_48h-Sox5_MA0087.3 8 bp overlap
Sox6 1 dataset
Motif DE_48h DE_48h-Sox6_MA0515.1 10 bp overlap
Sox7 1 dataset
Motif DE_48h DE_48h-Sox7_MA2095.1 10 bp overlap
TBX2 2 datasets
ChIP Kelly GSE94822.TBX2.Kelly 213 bp overlap
ChIP SK-N-BE2-C GSE94822.TBX2.SK-N-BE2-C 305 bp overlap
TFAP2A 1 dataset
Motif DE_48h DE_48h-TFAP2A_MA0810.2 11 bp overlap
TFAP2B 2 datasets
Motif DE_48h DE_48h-TFAP2B_MA0811.2 11 bp overlap
ChIP SK-N-SH ENCFF869XXQ 308 bp overlap
TFAP2C 1 dataset
Motif DE_48h DE_48h-TFAP2C_MA0524.3 11 bp overlap
TFAP2E 1 dataset
Motif DE_48h DE_48h-TFAP2E_MA1569.2 9 bp overlap
THAP1 1 dataset
Motif DE_48h DE_48h-THAP1_MA0597.3 8 bp overlap
TWIST1 2 datasets
ChIP BE2C GSE80151.TWIST1.BE2C 245 bp overlap
ChIP SK-N-BE2-C GSE80151.TWIST1.SK-N-BE2-C 245 bp overlap
ZNF22 1 dataset
ChIP HEK293 GSE76494.ZNF22.HEK293 125 bp overlap
ZSCAN4 1 dataset
Motif DE_48h DE_48h-ZSCAN4_MA1155.1 15 bp overlap