chr13:49,664,328–49,664,981

chr13 : 49,664,328 – 49,664,981

653 bp 75 TFs 7 linked genes

This 653 bp open chromatin element is linked to 7 target genes and is bound by 75 transcription factors.

Linked Genes

7 genes

Gene	Expression	Dist. to TSS	Distance	Link type
EBPL		26.7 kb	Distal	Multiome
RCBTB1		79.2 kb	Distal	Multiome
KPNA3		127.9 kb	Distal	Multiome+HiCAR
PHF11		168.5 kb	Distal	Multiome
SETDB2		220.5 kb	Distal	Multiome
CAB39L		220.7 kb	Distal	Multiome
SPRYD7		271.7 kb	Distal	Multiome+HiCAR

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

75 transcription factors

ARID1A 1 dataset

ChIP HAP1 GSE108387.ARID1A.HAP1 432 bp overlap

ChIP WA01 ENCSR000BQU.ATF2.WA01 161 bp overlap

Alx4 2 datasets

Motif DE_60h DE_60h-Alx4_MA0853.2 12 bp overlap

Motif DE_72h DE_72h-Alx4_MA0853.2 12 bp overlap

Arid3a 2 datasets

Motif DE_60h DE_60h-Arid3a_MA0151.1 6 bp overlap

Motif DE_72h DE_72h-Arid3a_MA0151.1 6 bp overlap

BRD4 2 datasets

ChIP HAP1 GSE108387.BRD4.HAP1 352 bp overlap

ChIP retina_AB1-RB GSE86981.BRD4.retina_AB1-RB 192 bp overlap

ChIP hiPSC_derived_lt-NES GSE108506.CHD7.hiPSC_derived_lt-NES 300 bp overlap

ChIP retina_Hu20 GSE137311.CRX.retina_Hu20 276 bp overlap

ChIP retina_Hu21 GSE137311.CRX.retina_Hu21 258 bp overlap

ChIP retina_Hu3 GSE137311.CRX.retina_Hu3 332 bp overlap

ChIP retina_Hu6 GSE137311.CRX.retina_Hu6 409 bp overlap

CTCF 5 datasets

ChIP HAP1_clone21_CTCF-TSS-CRISPR_1 GSE152721.CTCF.HAP1_clone21_CTCF-TSS-CRISPR_1 175 bp overlap

ChIP hESC_NAIVE GSE69646.CTCF.hESC_NAIVE 257 bp overlap

ChIP retina_Hu22 GSE137311.CTCF.retina_Hu22 346 bp overlap

ChIP retina_Hu25 GSE137311.CTCF.retina_Hu25 345 bp overlap

ChIP retina_Hu6 GSE137311.CTCF.retina_Hu6 496 bp overlap

Cebpa 2 datasets

ChIP BLaER1 ENCFF262VBH 244 bp overlap

ChIP BLaER1 ENCFF460KDD 230 bp overlap

Motif DE_60h DE_60h-Crx_MA0467.3 6 bp overlap

Motif DE_72h DE_72h-Crx_MA0467.3 6 bp overlap

DPRX 2 datasets

Motif DE_60h DE_60h-DPRX_MA1480.2 9 bp overlap

Motif DE_72h DE_72h-DPRX_MA1480.2 9 bp overlap

Dmbx1 2 datasets

Motif DE_60h DE_60h-Dmbx1_MA0883.2 10 bp overlap

Motif DE_72h DE_72h-Dmbx1_MA0883.2 10 bp overlap

ChIP WA01 ENCSR000BSI.E2F6.WA01 282 bp overlap

EOMES 1 dataset

ChIP hESC GSE26097.EOMES.hESC 371 bp overlap

ChIP aortic-endothelial-cell_D5 GSE139377.ERG.aortic-endothelial-cell_D5 57 bp overlap

ChIP MCF-7_TAMR_E2 GSE86538.ESR1.MCF-7_TAMR_E2 113 bp overlap

ChIP neural progenitor cell ENCFF018MKA 456 bp overlap

EZH2_phosphoT487 1 dataset

ChIP neural_progenitor ENCSR656MXA.EZH2_phosphoT487.neural_progenitor 394 bp overlap

FOXA2 2 datasets

ChIP DE DE-FOXA2-1 443 bp overlap

ChIP DE DE-FOXA2-2 330 bp overlap

GATA4 2 datasets

ChIP DE DE-GATA4-1 513 bp overlap

ChIP DE DE-GATA4-2 553 bp overlap

GATA6 3 datasets

ChIP DE DE-GATA6-1 586 bp overlap

ChIP DE DE-GATA6-2 535 bp overlap

ChIP DE_D2 S55-DE-d2-GATA6-exp2 389 bp overlap

Motif DE_60h DE_60h-GSC_MA0648.2 6 bp overlap

Motif DE_72h DE_72h-GSC_MA0648.2 6 bp overlap

GSC2 2 datasets

Motif DE_60h DE_60h-GSC2_MA0891.2 6 bp overlap

Motif DE_72h DE_72h-GSC2_MA0891.2 6 bp overlap

HOXC13 4 datasets

Motif DE_36h DE_36h-HOXC13_MA0907.2 9 bp overlap

Motif DE_48h DE_48h-HOXC13_MA0907.2 9 bp overlap

Motif DE_60h DE_60h-HOXC13_MA0907.2 9 bp overlap

Motif DE_72h DE_72h-HOXC13_MA0907.2 9 bp overlap

Hnf1A 2 datasets

Motif DE_60h DE_60h-Hnf1A_MA1991.2 10 bp overlap

Motif DE_72h DE_72h-Hnf1A_MA1991.2 10 bp overlap

IKZF2 3 datasets

Motif DE_48h DE_48h-IKZF2_MA2326.1 6 bp overlap

Motif DE_60h DE_60h-IKZF2_MA2326.1 6 bp overlap

Motif DE_72h DE_72h-IKZF2_MA2326.1 6 bp overlap

Isl1 2 datasets

Motif DE_60h DE_60h-Isl1_MA1608.2 7 bp overlap

Motif DE_72h DE_72h-Isl1_MA1608.2 7 bp overlap

ChIP Kasumi-1_RUNX1-KO GSE117105.JUND.Kasumi-1_RUNX1-KO 193 bp overlap

ChIP HAP1 GSE130417.KLF4.HAP1 224 bp overlap

ChIP WA01 ENCSR000EUP.MAX.WA01 138 bp overlap

MEF2D 3 datasets

ChIP retina_Hu13 GSE137311.MEF2D.retina_Hu13 305 bp overlap

ChIP retina_Hu21 GSE137311.MEF2D.retina_Hu21 379 bp overlap

ChIP retina_Hu25 GSE137311.MEF2D.retina_Hu25 341 bp overlap

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

Motif DE_72h DE_72h-MSC_MA0665.1 10 bp overlap

ChIP RH30_DMSO GSE85169.MYOG.RH30_DMSO 205 bp overlap

Mecom 2 datasets

Motif DE_60h DE_60h-Mecom_MA0029.2 11 bp overlap

Motif DE_72h DE_72h-Mecom_MA0029.2 11 bp overlap

Msgn1 3 datasets

Motif DE_48h DE_48h-Msgn1_MA1524.3 10 bp overlap

Motif DE_60h DE_60h-Msgn1_MA1524.3 10 bp overlap

Motif DE_72h DE_72h-Msgn1_MA1524.3 10 bp overlap

NANOG 1 dataset

ChIP WA01_3IL ERP004238.NANOG.WA01_3IL 219 bp overlap

NEUROD1 5 datasets

ChIP D283-Med GSE92582.NEUROD1.D283-Med 354 bp overlap

ChIP D283-Med_shNEUROD1-1579 GSE92582.NEUROD1.D283-Med_shNEUROD1-1579 349 bp overlap

ChIP D341-Med_shGFP GSE92582.NEUROD1.D341-Med_shGFP 366 bp overlap

ChIP D341-Med_shNEUROD1-1154 GSE92582.NEUROD1.D341-Med_shNEUROD1-1154 406 bp overlap

ChIP D341-Med_shNEUROD1-1579 GSE92582.NEUROD1.D341-Med_shNEUROD1-1579 460 bp overlap

NKX2-1 1 dataset

ChIP H9_derived-cIN GSE99937.NKX2-1.H9_derived-cIN 306 bp overlap

NKX6-3 2 datasets

Motif DE_60h DE_60h-NKX6-3_MA1530.2 8 bp overlap

Motif DE_72h DE_72h-NKX6-3_MA1530.2 8 bp overlap

ChIP retina_Hu13 GSE137311.NRL.retina_Hu13 328 bp overlap

OTX1 2 datasets

Motif DE_60h DE_60h-OTX1_MA0711.2 6 bp overlap

Motif DE_72h DE_72h-OTX1_MA0711.2 6 bp overlap

OTX2 2 datasets

ChIP WTC11 ENCFF634NAO 232 bp overlap

ChIP retina_Hu7 GSE137311.OTX2.retina_Hu7 378 bp overlap

PITX1 2 datasets

Motif DE_60h DE_60h-PITX1_MA0682.3 6 bp overlap

Motif DE_72h DE_72h-PITX1_MA0682.3 6 bp overlap

PITX2 2 datasets

Motif DE_60h DE_60h-PITX2_MA1547.2 8 bp overlap

Motif DE_72h DE_72h-PITX2_MA1547.2 8 bp overlap

PITX3 2 datasets

Motif DE_60h DE_60h-PITX3_MA0714.2 6 bp overlap

Motif DE_72h DE_72h-PITX3_MA0714.2 6 bp overlap

POU5F1 1 dataset

ChIP DE_D1 DED1-OCT4_Batch_II 256 bp overlap

PRDM1 2 datasets

Motif DE_60h DE_60h-PRDM1_MA0508.4 7 bp overlap

Motif DE_72h DE_72h-PRDM1_MA0508.4 7 bp overlap

Pparg::Rxra 3 datasets

Motif DE_48h DE_48h-PpargRxra_MA0065.3 13 bp overlap

Motif DE_60h DE_60h-PpargRxra_MA0065.3 13 bp overlap

Motif DE_72h DE_72h-PpargRxra_MA0065.3 13 bp overlap

RAD21 4 datasets

ChIP HAP1 GSE126634.RAD21.HAP1 577 bp overlap

ChIP HAP1 GSE152721.RAD21.HAP1 317 bp overlap

ChIP HAP1_CTCF GSE126634.RAD21.HAP1_CTCF 541 bp overlap

ChIP HAP1_clone25 GSE152721.RAD21.HAP1_clone25 254 bp overlap

REST 4 datasets

Motif DE_48h DE_48h-REST_MA0138.3 20 bp overlap

Motif DE_60h DE_60h-REST_MA0138.3 20 bp overlap

Motif DE_72h DE_72h-REST_MA0138.3 20 bp overlap

ChIP WA01 ENCSR000BHM.REST.WA01 87 bp overlap

RHOXF1 2 datasets

Motif DE_60h DE_60h-RHOXF1_MA0719.2 6 bp overlap

Motif DE_72h DE_72h-RHOXF1_MA0719.2 6 bp overlap

ChIP retina_Hu22 GSE137311.RORB.retina_Hu22 330 bp overlap

RUNX1T1 1 dataset

ChIP Kasumi-1 GSE102697.RUNX1T1.Kasumi-1 147 bp overlap

SMAD2-3 1 dataset

ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 496 bp overlap

SMAD2_3 2 datasets

ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 301 bp overlap

ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 588 bp overlap

ChIP HAP1 GSE94992.SMC1.HAP1 242 bp overlap

SOX10 3 datasets

Motif DE_48h DE_48h-SOX10_MA0442.3 6 bp overlap

Motif DE_60h DE_60h-SOX10_MA0442.3 6 bp overlap

Motif DE_72h DE_72h-SOX10_MA0442.3 6 bp overlap

SOX17 1 dataset

ChIP DE_D2 DED2-SOX17_Batch_II 375 bp overlap

SOX17_M 1 dataset

ChIP DE_D2 DED2-SOX17-M_Batch_II 464 bp overlap

SOX2 3 datasets

ChIP H9 GSE46837.SOX2.H9 167 bp overlap

ChIP HNSC GSE69479.SOX2.HNSC 291 bp overlap

ChIP LK2_GFP GSE137459.SOX2.LK2_GFP 262 bp overlap

SOX21 1 dataset

ChIP neuroepithelilal-cells GSE110505.SOX21.neuroepithelilal-cells 437 bp overlap

SOX4 3 datasets

Motif DE_48h DE_48h-SOX4_MA0867.3 8 bp overlap

Motif DE_60h DE_60h-SOX4_MA0867.3 8 bp overlap

Motif DE_72h DE_72h-SOX4_MA0867.3 8 bp overlap

Sox11 3 datasets

Motif DE_48h DE_48h-Sox11_MA0869.3 8 bp overlap

Motif DE_60h DE_60h-Sox11_MA0869.3 8 bp overlap

Motif DE_72h DE_72h-Sox11_MA0869.3 8 bp overlap

Sox6 5 datasets

Motif DE_48h DE_48h-Sox6_MA0515.1 10 bp overlap

Motif DE_60h DE_60h-Sox6_MA0515.1 10 bp overlap

Motif DE_60h DE_60h-Sox6_MA0515.1 10 bp overlap

Motif DE_72h DE_72h-Sox6_MA0515.1 10 bp overlap

Motif DE_72h DE_72h-Sox6_MA0515.1 10 bp overlap

Sox7 2 datasets

Motif DE_60h DE_60h-Sox7_MA2095.1 10 bp overlap

Motif DE_72h DE_72h-Sox7_MA2095.1 10 bp overlap

ChIP H9_ENDODERM GSE60606.T.H9_ENDODERM 257 bp overlap

TCF12 1 dataset

ChIP WA01 ENCSR000BIT.TCF12.WA01 117 bp overlap

TFAP2A 6 datasets

Motif DE_48h DE_48h-TFAP2A_MA0003.5 9 bp overlap

Motif DE_48h DE_48h-TFAP2A_MA0810.2 11 bp overlap

Motif DE_60h DE_60h-TFAP2A_MA0003.5 9 bp overlap

Motif DE_60h DE_60h-TFAP2A_MA0810.2 11 bp overlap

Motif DE_72h DE_72h-TFAP2A_MA0003.5 9 bp overlap

Motif DE_72h DE_72h-TFAP2A_MA0810.2 11 bp overlap

TFAP2B 3 datasets

Motif DE_48h DE_48h-TFAP2B_MA0811.2 11 bp overlap

Motif DE_60h DE_60h-TFAP2B_MA0811.2 11 bp overlap

Motif DE_72h DE_72h-TFAP2B_MA0811.2 11 bp overlap

TFAP2C 6 datasets

Motif DE_48h DE_48h-TFAP2C_MA0524.3 11 bp overlap

Motif DE_48h DE_48h-TFAP2C_MA0814.3 9 bp overlap

Motif DE_60h DE_60h-TFAP2C_MA0524.3 11 bp overlap

Motif DE_60h DE_60h-TFAP2C_MA0814.3 9 bp overlap

Motif DE_72h DE_72h-TFAP2C_MA0524.3 11 bp overlap

Motif DE_72h DE_72h-TFAP2C_MA0814.3 9 bp overlap

ChIP liver ENCSR994YLZ.YY1.liver 190 bp overlap

ZBTB24 3 datasets

Motif DE_48h DE_48h-ZBTB24_MA2330.1 10 bp overlap

Motif DE_60h DE_60h-ZBTB24_MA2330.1 10 bp overlap

Motif DE_72h DE_72h-ZBTB24_MA2330.1 10 bp overlap

ZNF184 2 datasets

Motif DE_60h DE_60h-ZNF184_MA2120.1 13 bp overlap

Motif DE_72h DE_72h-ZNF184_MA2120.1 13 bp overlap

ZNF362 1 dataset

ChIP HEK293 ENCSR715QNO.ZNF362.HEK293 97 bp overlap

ZNF766 3 datasets

Motif DE_48h DE_48h-ZNF766_MA2098.1 9 bp overlap

Motif DE_60h DE_60h-ZNF766_MA2098.1 9 bp overlap

Motif DE_72h DE_72h-ZNF766_MA2098.1 9 bp overlap