chr3 : 187,180,878 – 187,181,558

680 bp 55 TFs 2 linked genes

This 680 bp open chromatin element is linked to RPL39L and ST6GAL1 and is bound by 55 transcription factors.

Linked Genes

2 genes

Gene	Expression	Dist. to TSS	Distance	Link type
RPL39L		41.7 kb	Distal	Multiome
ST6GAL1		250.7 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

55 transcription factors

AFF4 2 datasets

ChIP WTC11 ENCFF556XTF 320 bp overlap

ChIP WTC11 ENCFF556XTF 445 bp overlap

ATF2 1 dataset

ChIP WA01 ENCSR000BQU.ATF2.WA01 55 bp overlap

Atoh1 1 dataset

Motif ES_0h ES_0h-Atoh1_MA1467.3 7 bp overlap

BRD4 1 dataset

ChIP hESC GSE33281.BRD4.hESC 61 bp overlap

CHD1 1 dataset

ChIP WA01 ENCSR000AQK.CHD1.WA01 167 bp overlap

CTCFL 1 dataset

Motif DE_24h DE_24h-CTCFL_MA1102.3 8 bp overlap

Cebpa 1 dataset

ChIP BLaER1 ENCFF262VBH 261 bp overlap

ETS1 1 dataset

ChIP GM23338 ENCFF701IZH 377 bp overlap

ETV6 1 dataset

ChIP WTC11 ENCFF812SCD 437 bp overlap

FEZF2 1 dataset

Motif DE_12h DE_12h-FEZF2_MA2341.1 8 bp overlap

HAND2 1 dataset

Motif ES_0h ES_0h-HAND2_MA1638.2 6 bp overlap

ISL2 1 dataset

Motif ES_0h ES_0h-ISL2_MA0914.2 6 bp overlap

JUN 3 datasets

ChIP DE_D1 S08-DE-d1-JUN-exp1 291 bp overlap

ChIP DE_D1 S40-DE-d1-JUN-exp2 476 bp overlap

ChIP DE_D2 S02-DE-d2-JUN-exp1 429 bp overlap

KDM1A 1 dataset

ChIP T-47D-MTVL GSE64467.KDM1A.T-47D-MTVL 54 bp overlap

KDM4A 1 dataset

ChIP hiPSC_IID12 GSE106870.KDM4A.hiPSC_IID12 84 bp overlap

MAFK 1 dataset

Motif DE_12h DE_12h-MAFK_MA0496.4 10 bp overlap

NANOG 5 datasets

ChIP GM23338 ENCFF065NZG 311 bp overlap

ChIP HUES-8 GSE109524.NANOG.HUES-8 240 bp overlap

ChIP WA01 ERP004238.NANOG.WA01 312 bp overlap

ChIP WA01_3IL ERP004238.NANOG.WA01_3IL 456 bp overlap

ChIP WA09 GSE105028.NANOG.WA09 405 bp overlap

NEUROD1 1 dataset

Motif ES_0h ES_0h-NEUROD1_MA1109.2 8 bp overlap

NEUROG2 1 dataset

Motif ES_0h ES_0h-NEUROG2_MA1642.2 7 bp overlap

NFE2L1 1 dataset

ChIP WTC11 ENCFF644BPU 377 bp overlap

Neurod2 1 dataset

Motif ES_0h ES_0h-Neurod2_MA0668.3 8 bp overlap

Nfat5 1 dataset

Motif DE_24h DE_24h-Nfat5_MA0606.3 8 bp overlap

Nfatc2 1 dataset

Motif DE_24h DE_24h-Nfatc2_MA0152.3 8 bp overlap

Nkx3-2 1 dataset

Motif ES_0h ES_0h-Nkx3-2_MA0122.4 10 bp overlap

Nr1h3::Rxra 1 dataset

Motif ES_0h ES_0h-Nr1h3Rxra_MA0494.2 16 bp overlap

POLR2A 4 datasets

ChIP GM23338 ENCFF450WCS 339 bp overlap

ChIP GM23338 ENCFF450WCS 332 bp overlap

ChIP H1 ENCFF566JSR 229 bp overlap

ChIP H1 ENCFF833NJP 411 bp overlap

POU5F1 3 datasets

ChIP DE_D1 DED1-OCT4_Batch_II 453 bp overlap

ChIP NCCIT_SNF5 GSE36134.POU5F1.NCCIT_SNF5 289 bp overlap

ChIP hESC_NAIVE GSE69646.POU5F1.hESC_NAIVE 179 bp overlap

POU5F1_M 1 dataset

ChIP DE_D1 DED1-OCT4-M_Batch_II 351 bp overlap

PPARG 1 dataset

Motif DE_24h DE_24h-PPARG_MA0066.2 19 bp overlap

RAD21 1 dataset

ChIP HAP1 GSE152721.RAD21.HAP1 77 bp overlap

SMAD2_3 2 datasets

ChIP DE_D1 S07-DE-d1-SMAD2_3-exp1 268 bp overlap

ChIP DE_D1 S39-DE-d1-SMAD2_3-exp2 293 bp overlap

SMAD3 1 dataset

ChIP NCI-H441_SIITTF1 GSE51509.SMAD3.NCI-H441_SIITTF1 81 bp overlap

SMARCA4 1 dataset

ChIP hiPSC GSE124903.SMARCA4.hiPSC 175 bp overlap

SP5 1 dataset

Motif DE_12h DE_12h-SP5_MA1965.2 6 bp overlap

SPIB 2 datasets

Motif ES_0h ES_0h-SPIB_MA0081.3 13 bp overlap

TAF1 2 datasets

ChIP H1 ENCFF478SZO 387 bp overlap

ChIP H1 ENCFF478SZO 485 bp overlap

TBP 1 dataset

ChIP hESC_2h GSE122298.TBP.hESC_2h 124 bp overlap

TEAD1 2 datasets

ChIP WTC11 ENCFF502QUV 305 bp overlap

ChIP WTC11 ENCFF502QUV 405 bp overlap

TFAP2C 1 dataset

Motif DE_12h DE_12h-TFAP2C_MA0814.3 9 bp overlap

TP53 3 datasets

ChIP H9 GSE142050.TP53.H9 387 bp overlap

ChIP H9_ectoderm GSE142050.TP53.H9_ectoderm 400 bp overlap

ChIP H9_mesoderm GSE142050.TP53.H9_mesoderm 294 bp overlap

TWIST1 1 dataset

Motif ES_0h ES_0h-TWIST1_MA1123.3 8 bp overlap

Thap11 1 dataset

Motif DE_12h DE_12h-Thap11_MA1573.2 14 bp overlap

ZNF135 2 datasets

Motif DE_12h DE_12h-ZNF135_MA1587.1 14 bp overlap

ZNF157 1 dataset

Motif DE_24h DE_24h-ZNF157_MA2331.1 21 bp overlap

ZNF184 1 dataset

ChIP WTC11 ENCFF352POG 193 bp overlap

ZNF257 1 dataset

Motif DE_12h DE_12h-ZNF257_MA1710.2 10 bp overlap

ZNF416 1 dataset

Motif ES_0h ES_0h-ZNF416_MA1979.2 10 bp overlap

ZNF418 1 dataset

Motif DE_12h DE_12h-ZNF418_MA1980.1 15 bp overlap

ZNF449 2 datasets

Motif DE_12h DE_12h-ZNF449_MA1656.2 10 bp overlap

Motif ES_0h ES_0h-ZNF449_MA1656.2 10 bp overlap

ZNF454 2 datasets

Motif DE_12h DE_12h-ZNF454_MA1712.2 17 bp overlap

Motif ES_0h ES_0h-ZNF454_MA1712.2 17 bp overlap

ZNF460 2 datasets

Motif DE_12h DE_12h-ZNF460_MA1596.1 16 bp overlap

ZNF524 1 dataset

Motif DE_12h DE_12h-ZNF524_MA2096.1 9 bp overlap

ZNF582 1 dataset

Motif ES_0h ES_0h-ZNF582_MA1983.2 19 bp overlap

ZNF770 1 dataset

Motif DE_12h DE_12h-ZNF770_MA2099.1 8 bp overlap

ZNF784 1 dataset

Motif DE_24h DE_24h-ZNF784_MA1717.2 8 bp overlap