chr1:48,208,078–48,209,322

chr1 : 48,208,078 – 48,209,322

1,244 bp 64 TFs 5 linked genes

This 1.2 kb open chromatin element is linked to 5 target genes and is bound by 64 transcription factors.

Linked Genes

5 genes

Gene	Expression	Dist. to TSS	Distance	Link type
SLC5A9		13.8 kb	Distal	Multiome
ENSG00000291246		26.4 kb	Distal	Multiome
ENSG00000290466		80.9 kb	Distal	Multiome
TRABD2B		211.5 kb	Distal	Multiome+HiCAR
SPATA6		263.3 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

64 transcription factors

ASCL1 3 datasets

Motif DE_12h DE_12h-ASCL1_MA1631.2 9 bp overlap

Motif DE_72h DE_72h-ASCL1_MA1631.2 9 bp overlap

Motif ES_0h ES_0h-ASCL1_MA1631.2 9 bp overlap

Arid3a 1 dataset

Motif DE_12h DE_12h-Arid3a_MA0151.1 6 bp overlap

Motif DE_72h DE_72h-Atf1_MA0604.1 8 bp overlap

BACH1 1 dataset

Motif DE_72h DE_72h-BACH1_MA1633.2 9 bp overlap

ChIP hESC GSE33281.BRD4.hESC 61 bp overlap

CREB1 1 dataset

ChIP WA01 ENCSR000BSN.CREB1.WA01 124 bp overlap

CTCF 6 datasets

ChIP GM23338 ENCFF531QOI 425 bp overlap

ChIP H9 ENCFF152GTF 461 bp overlap

ChIP LNCaP_Ctrl GSE125639.CTCF.LNCaP_Ctrl 160 bp overlap

ChIP WA01_NEUR GSE52457.CTCF.WA01_NEUR 154 bp overlap

ChIP choroid-plexus_epithelial ENCSR000DTL.CTCF.choroid-plexus_epithelial 143 bp overlap

ChIP endodermal cell ENCFF471YCZ 163 bp overlap

Cebpa 1 dataset

ChIP BLaER1 ENCFF460KDD 236 bp overlap

ChIP WA01 ENCSR000BSI.E2F6.WA01 110 bp overlap

ChIP A-1847_CARM1-KO GSE95643.EZH2.A-1847_CARM1-KO 475 bp overlap

FIGLA 3 datasets

Motif DE_12h DE_12h-FIGLA_MA0820.2 6 bp overlap

Motif DE_72h DE_72h-FIGLA_MA0820.2 6 bp overlap

Motif ES_0h ES_0h-FIGLA_MA0820.2 6 bp overlap

FOS::JUN 1 dataset

Motif DE_72h DE_72h-FOSJUN_MA0099.4 9 bp overlap

FOS::JUND 1 dataset

Motif DE_72h DE_72h-FOSJUND_MA1141.2 9 bp overlap

FOSL1::JUN 1 dataset

Motif DE_72h DE_72h-FOSL1JUN_MA1128.2 9 bp overlap

FOSL1::JUND 1 dataset

Motif DE_72h DE_72h-FOSL1JUND_MA1142.2 8 bp overlap

FOSL2::JUN 1 dataset

Motif DE_72h DE_72h-FOSL2JUN_MA1130.2 9 bp overlap

FOXA2 2 datasets

ChIP DE DE-FOXA2-1 310 bp overlap

ChIP DE DE-FOXA2-2 338 bp overlap

GATA1 3 datasets

Motif DE_12h DE_12h-GATA1_MA0035.5 7 bp overlap

Motif DE_72h DE_72h-GATA1_MA0035.5 7 bp overlap

Motif ES_0h ES_0h-GATA1_MA0035.5 7 bp overlap

GATA4 2 datasets

ChIP DE DE-GATA4-1 441 bp overlap

ChIP DE DE-GATA4-2 523 bp overlap

GATA6 9 datasets

ChIP DE DE-GATA6-1 419 bp overlap

ChIP DE DE-GATA6-2 381 bp overlap

ChIP DE_D1 S09-DE-d1-GATA6-exp1 696 bp overlap

ChIP DE_D1 S14-DE-d1-GATA6-exp1 586 bp overlap

ChIP DE_D1 S41-DE-d1-GATA6-exp2 733 bp overlap

ChIP DE_D2 S55-DE-d2-GATA6-exp2 404 bp overlap

ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 570 bp overlap

ChIP HUES-8_DE_ctrl GSE109524.GATA6.HUES-8_DE_ctrl 586 bp overlap

ChIP endoderm_KO GSE117136.GATA6.endoderm_KO 267 bp overlap

GTF3C2 1 dataset

ChIP H9 GSE94418.GTF3C2.H9 204 bp overlap

ChIP 786-O GSE86092.JUN.786-O 195 bp overlap

ChIP DE_D1 S40-DE-d1-JUN-exp2 324 bp overlap

JUN::JUNB 1 dataset

Motif DE_72h DE_72h-JUNJUNB_MA1132.2 8 bp overlap

KLF1 3 datasets

Motif DE_12h DE_12h-KLF1_MA0493.3 8 bp overlap

Motif DE_72h DE_72h-KLF1_MA0493.3 8 bp overlap

Motif ES_0h ES_0h-KLF1_MA0493.3 8 bp overlap

KLF2 3 datasets

Motif DE_12h DE_12h-KLF2_MA1515.2 8 bp overlap

Motif DE_72h DE_72h-KLF2_MA1515.2 8 bp overlap

Motif ES_0h ES_0h-KLF2_MA1515.2 8 bp overlap

KLF4 3 datasets

Motif DE_12h DE_12h-KLF4_MA0039.5 8 bp overlap

Motif DE_72h DE_72h-KLF4_MA0039.5 8 bp overlap

Motif ES_0h ES_0h-KLF4_MA0039.5 8 bp overlap

KLF5 3 datasets

Motif DE_12h DE_12h-KLF5_MA0599.1 10 bp overlap

Motif DE_72h DE_72h-KLF5_MA0599.1 10 bp overlap

Motif ES_0h ES_0h-KLF5_MA0599.1 10 bp overlap

ChIP CCRF-CEM GSE33850.LMO2.CCRF-CEM 87 bp overlap

MEF2D 1 dataset

ChIP retina_Hu25 GSE137311.MEF2D.retina_Hu25 74 bp overlap

Mecom 3 datasets

Motif DE_12h DE_12h-Mecom_MA0029.2 11 bp overlap

Motif DE_72h DE_72h-Mecom_MA0029.2 11 bp overlap

Motif ES_0h ES_0h-Mecom_MA0029.2 11 bp overlap

NANOG 2 datasets

ChIP HUES-8 GSE109524.NANOG.HUES-8 273 bp overlap

ChIP WA01_3IL ERP004238.NANOG.WA01_3IL 215 bp overlap

POU1F1 2 datasets

Motif DE_72h DE_72h-POU1F1_MA0784.3 14 bp overlap

Motif DE_72h DE_72h-POU1F1_MA0784.3 14 bp overlap

POU2F1 2 datasets

Motif DE_72h DE_72h-POU2F1_MA0785.2 9 bp overlap

Motif DE_72h DE_72h-POU2F1_MA0785.2 9 bp overlap

POU2F1::SOX2 3 datasets

Motif DE_12h DE_12h-POU2F1SOX2_MA1962.1 17 bp overlap

Motif DE_72h DE_72h-POU2F1SOX2_MA1962.1 17 bp overlap

Motif ES_0h ES_0h-POU2F1SOX2_MA1962.1 17 bp overlap

POU2F2 1 dataset

Motif DE_72h DE_72h-POU2F2_MA0507.3 13 bp overlap

POU2F3 2 datasets

Motif DE_72h DE_72h-POU2F3_MA0627.3 9 bp overlap

Motif DE_72h DE_72h-POU2F3_MA0627.3 9 bp overlap

POU3F1 2 datasets

Motif DE_72h DE_72h-POU3F1_MA0786.2 10 bp overlap

Motif DE_72h DE_72h-POU3F1_MA0786.2 10 bp overlap

POU3F2 2 datasets

Motif DE_72h DE_72h-POU3F2_MA0787.1 12 bp overlap

Motif DE_72h DE_72h-POU3F2_MA0787.1 12 bp overlap

POU3F3 1 dataset

Motif DE_72h DE_72h-POU3F3_MA0788.1 13 bp overlap

POU3F4 2 datasets

Motif DE_72h DE_72h-POU3F4_MA0789.1 9 bp overlap

Motif DE_72h DE_72h-POU3F4_MA0789.1 9 bp overlap

POU4F2 3 datasets

Motif DE_12h DE_12h-POU4F2_MA0683.2 15 bp overlap

Motif DE_72h DE_72h-POU4F2_MA0683.2 15 bp overlap

Motif ES_0h ES_0h-POU4F2_MA0683.2 15 bp overlap

POU5F1 8 datasets

Motif DE_72h DE_72h-POU5F1_MA1115.2 7 bp overlap

Motif DE_72h DE_72h-POU5F1_MA1115.2 7 bp overlap

ChIP DE_D1 DED1-OCT4_Batch_II 258 bp overlap

ChIP HUES-8 GSE109524.POU5F1.HUES-8 537 bp overlap

ChIP NCCIT_SNF5 GSE36134.POU5F1.NCCIT_SNF5 747 bp overlap

ChIP hESC_NAIVE GSE69646.POU5F1.hESC_NAIVE 692 bp overlap

ChIP hESC_PRIMED GSE69646.POU5F1.hESC_PRIMED 527 bp overlap

ChIP hiPSC GSE56567.POU5F1.hiPSC 229 bp overlap

POU5F1B 2 datasets

Motif DE_72h DE_72h-POU5F1B_MA0792.1 9 bp overlap

Motif DE_72h DE_72h-POU5F1B_MA0792.1 9 bp overlap

POU5F1_M 1 dataset

ChIP DE_D1 DED1-OCT4-M_Batch_II 547 bp overlap

Pou5f1::Sox2 3 datasets

Motif DE_12h DE_12h-Pou5f1Sox2_MA0142.1 15 bp overlap

Motif DE_72h DE_72h-Pou5f1Sox2_MA0142.1 15 bp overlap

Motif ES_0h ES_0h-Pou5f1Sox2_MA0142.1 15 bp overlap

SMAD2_3 3 datasets

ChIP DE_D1 S07-DE-d1-SMAD2_3-exp1 386 bp overlap

ChIP DE_D1 S39-DE-d1-SMAD2_3-exp2 279 bp overlap

ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 237 bp overlap

SMARCC1 1 dataset

ChIP hiPSC GSE124903.SMARCC1.hiPSC 157 bp overlap

SNAI1 3 datasets

Motif DE_12h DE_12h-SNAI1_MA1558.2 7 bp overlap

Motif DE_72h DE_72h-SNAI1_MA1558.2 7 bp overlap

Motif ES_0h ES_0h-SNAI1_MA1558.2 7 bp overlap

SNAI3 3 datasets

Motif DE_12h DE_12h-SNAI3_MA1559.2 9 bp overlap

Motif DE_72h DE_72h-SNAI3_MA1559.2 9 bp overlap

Motif ES_0h ES_0h-SNAI3_MA1559.2 9 bp overlap

SOX17_M 1 dataset

ChIP DE_D2 DED2-SOX17-M_Batch_II 418 bp overlap

ChIP hiPSC GSE56567.SOX2.hiPSC 297 bp overlap

ChIP RH4 GSE116344.SOX8.RH4 233 bp overlap

TCF12 3 datasets

Motif DE_12h DE_12h-TCF12_MA1648.2 7 bp overlap

Motif DE_72h DE_72h-TCF12_MA1648.2 7 bp overlap

Motif ES_0h ES_0h-TCF12_MA1648.2 7 bp overlap

TCF3 3 datasets

Motif DE_12h DE_12h-TCF3_MA0522.4 7 bp overlap

Motif DE_72h DE_72h-TCF3_MA0522.4 7 bp overlap

Motif ES_0h ES_0h-TCF3_MA0522.4 7 bp overlap

TCF4 3 datasets

Motif DE_12h DE_12h-TCF4_MA0830.3 8 bp overlap

Motif DE_72h DE_72h-TCF4_MA0830.3 8 bp overlap

Motif ES_0h ES_0h-TCF4_MA0830.3 8 bp overlap

TEAD4 1 dataset

ChIP hMSC-TERT4 GSE140782.TEAD4.hMSC-TERT4 199 bp overlap

TRIM28 1 dataset

ChIP hESC GSE115387.TRIM28.hESC 174 bp overlap

ChIP H1 ENCFF524BTL 337 bp overlap

ChIP WA01 ENCSR000BKD.YY1.WA01 123 bp overlap

ChIP WA01 ENCSR000BKD.YY1.WA01 284 bp overlap

ZBTB32 1 dataset

Motif DE_12h DE_12h-ZBTB32_MA1580.1 10 bp overlap

ZEB1 3 datasets

Motif DE_12h DE_12h-ZEB1_MA0103.4 6 bp overlap

Motif DE_72h DE_72h-ZEB1_MA0103.4 6 bp overlap

Motif ES_0h ES_0h-ZEB1_MA0103.4 6 bp overlap

ZFP42 1 dataset

Motif DE_12h DE_12h-ZFP42_MA1651.2 13 bp overlap

ChIP HEK293T_FLAG GSE145160.ZFX.HEK293T_FLAG 218 bp overlap

ZNF547 1 dataset

Motif DE_72h DE_72h-ZNF547_MA2334.1 13 bp overlap

ZNF75D 2 datasets

Motif DE_12h DE_12h-ZNF75D_MA1601.2 12 bp overlap

Motif DE_72h DE_72h-ZNF75D_MA1601.2 12 bp overlap