chr3:45,684,209–45,684,875

chr3 : 45,684,209 – 45,684,875

666 bp 109 TFs 6 linked genes

This 666 bp open chromatin element is linked to 6 target genes and is bound by 109 transcription factors.

Linked Genes

6 genes

Gene	Expression	Dist. to TSS	Distance	Link type
LIMD1-AS1		4.3 kb	Proximal	Proximity
SACM1L		4.4 kb	Proximal	Proximity
LIMD1		90.3 kb	Distal	Multiome
SLC6A20		111.9 kb	Distal	Multiome
LZTFL1		157.5 kb	Distal	Multiome
LARS2		296.0 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

109 transcription factors

ChIP WTC11 ENCFF556XTF 445 bp overlap

ASCL1 5 datasets

ChIP NCI-H128 GSE69394.ASCL1.NCI-H128 145 bp overlap

ChIP NCI-H2107 GSE69394.ASCL1.NCI-H2107 116 bp overlap

ChIP NCI-H889 GSE69394.ASCL1.NCI-H889 157 bp overlap

ChIP SCLC_ASCLP GSE61197.ASCL1.SCLC_ASCLP 164 bp overlap

ChIP SCLC_ASCLP_NE GSE61197.ASCL1.SCLC_ASCLP_NE 104 bp overlap

ASH2L 4 datasets

ChIP H1 ENCFF399KAM 666 bp overlap

ChIP H1 ENCFF399KAM 530 bp overlap

ChIP Hep-G2 ENCSR508LMH.ASH2L.Hep-G2 147 bp overlap

ChIP WA01 ENCSR850KIP.ASH2L.WA01 526 bp overlap

ATF2 2 datasets

ChIP H1 ENCFF295GZO 375 bp overlap

ChIP WA01 ENCSR000BQU.ATF2.WA01 382 bp overlap

BCL3 3 datasets

ChIP A-549 ENCSR000BQH.BCL3.A-549 666 bp overlap

ChIP GM12878 ENCSR000BNQ.BCL3.GM12878 226 bp overlap

ChIP GM12878 ENCSR000BNQ.BCL3.GM12878 220 bp overlap

ChIP WA01 ENCSR000AQK.CHD1.WA01 333 bp overlap

ChIP WA01 ENCSR000EBT.CHD2.WA01 151 bp overlap

CREB1 1 dataset

ChIP GM23338 ENCSR214ZAV.CREB1.GM23338 144 bp overlap

ChIP GM23338 ENCFF772DML 201 bp overlap

Cebpa 1 dataset

ChIP BLaER1 ENCFF364PUR 151 bp overlap

E2F6 4 datasets

ChIP H1 ENCFF785DWK 293 bp overlap

ChIP H1 ENCFF785DWK 201 bp overlap

ChIP K-562 ENCSR000EWJ.E2F6.K-562 153 bp overlap

ChIP WA01 ENCSR000BSI.E2F6.WA01 663 bp overlap

ChIP GM12878 ENCSR793HVL.E2F8.GM12878 602 bp overlap

EGR1 4 datasets

ChIP Hep-G2 ENCSR026GSW.EGR1.Hep-G2 282 bp overlap

ChIP HepG2 ENCFF674RQO 478 bp overlap

ChIP K-562 ENCSR000BNE.EGR1.K-562 148 bp overlap

ChIP K562 ENCFF006PJY 245 bp overlap

ChIP WTC11 ENCFF692RZJ 252 bp overlap

EOMES 1 dataset

ChIP hESC GSE26097.EOMES.hESC 168 bp overlap

EP300 3 datasets

ChIP H1 ENCFF927IYK 297 bp overlap

ChIP WA01 ENCSR000BKK.EP300.WA01 431 bp overlap

ChIP WA01 ENCSR000AUQ.EP300.WA01 115 bp overlap

FOSL2 1 dataset

ChIP Hep-G2 ENCSR000BHP.FOSL2.Hep-G2 89 bp overlap

FOXA1 1 dataset

ChIP breast-cancer_Veh-2856 GSE128018.FOXA1.breast-cancer_Veh-2856 503 bp overlap

FOXK2 1 dataset

ChIP K562 ENCFF851PFH 457 bp overlap

GATA4 1 dataset

ChIP A-549 GSE85002.GATA4.A-549 218 bp overlap

GATA6 2 datasets

ChIP DE_D1 S09-DE-d1-GATA6-exp1 263 bp overlap

ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 456 bp overlap

GMEB1 2 datasets

ChIP K-562 ENCSR928KOR.GMEB1.K-562 216 bp overlap

ChIP K562 ENCFF705LHX 560 bp overlap

HDAC2 2 datasets

ChIP K-562 ENCSR075HTM.HDAC2.K-562 255 bp overlap

ChIP WA01 ENCSR000AVB.HDAC2.WA01 181 bp overlap

HDAC6 1 dataset

ChIP WA01 ENCSR000ATQ.HDAC6.WA01 93 bp overlap

HOXA7 2 datasets

ChIP A-549 ENCSR402OYZ.HOXA7.A-549 197 bp overlap

ChIP A549 ENCFF746ZBJ 275 bp overlap

IFNA1 2 datasets

ChIP Huh-7_GFP GSE110511.IFNA1.Huh-7_GFP 283 bp overlap

ChIP Huh-7_NS5 GSE110511.IFNA1.Huh-7_NS5 270 bp overlap

IKZF1 3 datasets

ChIP K-562 ENCSR395HWC.IKZF1.K-562 555 bp overlap

ChIP K562 ENCFF348IBL 224 bp overlap

ChIP K562 ENCFF771OHZ 172 bp overlap

ChIP HUES-8_DE_ctrl GSE109524.JUN.HUES-8_DE_ctrl 321 bp overlap

KDM2A 1 dataset

ChIP HepG2 ENCFF491GTR 162 bp overlap

KMT2B-D 1 dataset

ChIP SW480 GSE115985.KMT2B-D.SW480 379 bp overlap

LEF1 4 datasets

ChIP K-562 ENCSR832OGB.LEF1.K-562 311 bp overlap

ChIP K-562 ENCSR343ELW.LEF1.K-562 309 bp overlap

ChIP K562 ENCFF198WCP 457 bp overlap

ChIP K562 ENCFF889WGL 361 bp overlap

ChIP H1 ENCFF601FOM 154 bp overlap

ChIP H1 ENCFF914VQY 232 bp overlap

ChIP Hep-G2 ENCSR168DYA.MAX.Hep-G2 239 bp overlap

ChIP K562 ENCFF398VJM 346 bp overlap

ChIP K562 ENCFF398VJM 537 bp overlap

ChIP K562 ENCFF524IJO 397 bp overlap

ChIP WA01 ENCSR000EUP.MAX.WA01 427 bp overlap

ChIP WTC11 ENCFF223QFY 412 bp overlap

MECOM 1 dataset

ChIP K562 ENCFF773RGL 257 bp overlap

MEIS2 2 datasets

ChIP K-562 ENCSR851BNE.MEIS2.K-562 336 bp overlap

ChIP K562 ENCFF320GSD 381 bp overlap

ChIP K562 ENCFF140CEX 585 bp overlap

ChIP K-562 ENCSR979QYJ.MNT.K-562 252 bp overlap

ChIP K-562 ENCSR390VGH.MNT.K-562 294 bp overlap

ChIP K-562 ENCSR512NLO.MNT.K-562 222 bp overlap

ChIP K562 ENCFF820IGH 565 bp overlap

MORC2 1 dataset

ChIP H9 GSE95374.MORC2.H9 454 bp overlap

ChIP GM12878 ENCSR000BRH.MTA3.GM12878 76 bp overlap

MXI1 2 datasets

ChIP H1 ENCFF963FZS 171 bp overlap

ChIP WA01 ENCSR000EBR.MXI1.WA01 249 bp overlap

MYBL2 1 dataset

ChIP Hep-G2 ENCSR581KCO.MYBL2.Hep-G2 196 bp overlap

ChIP WA01 ENCSR000EBY.MYC.WA01 118 bp overlap

MYNN 2 datasets

ChIP Hep-G2 ENCSR398TMP.MYNN.Hep-G2 128 bp overlap

ChIP K-562 ENCSR737LTZ.MYNN.K-562 189 bp overlap

NANOG 5 datasets

ChIP HUES-8 GSE109524.NANOG.HUES-8 578 bp overlap

ChIP WA01 ENCSR000BMT.NANOG.WA01 378 bp overlap

ChIP WA01 ERP004238.NANOG.WA01 387 bp overlap

ChIP WA01_3IL ERP004238.NANOG.WA01_3IL 265 bp overlap

ChIP WA09 GSE105028.NANOG.WA09 289 bp overlap

NCAPH2 2 datasets

ChIP IMR-90_FLAG_OIS GSE118494.NCAPH2.IMR-90_FLAG_OIS 377 bp overlap

ChIP IMR-90_FLAG_OIS GSE118494.NCAPH2.IMR-90_FLAG_OIS 191 bp overlap

NFATC1 1 dataset

ChIP GM12878 ENCSR000BQL.NFATC1.GM12878 450 bp overlap

ChIP K562 ENCFF047YKA 294 bp overlap

NFIA 2 datasets

ChIP HepG2 ENCFF815HWK 373 bp overlap

ChIP K-562 GSE97661.NFIA.K-562 235 bp overlap

NFIC 2 datasets

ChIP K-562 ENCSR796ITY.NFIC.K-562 416 bp overlap

ChIP K562 ENCFF167YID 357 bp overlap

NR2E3 1 dataset

ChIP A549 ENCFF833WDR 351 bp overlap

NR3C1 3 datasets

ChIP BEAS-2B_TNF_IA1 GSE125623.NR3C1.BEAS-2B_TNF_IA1 666 bp overlap

ChIP BEAS-2B_Veh_IA1 GSE125623.NR3C1.BEAS-2B_Veh_IA1 613 bp overlap

ChIP T-47D GSE126859.NR3C1.T-47D 115 bp overlap

ChIP HCT-116_ab20662 GSE97527.PAF1.HCT-116_ab20662 265 bp overlap

PKNOX1 1 dataset

ChIP K-562 ENCSR115SMW.PKNOX1.K-562 225 bp overlap

ChIP GM12878 ENCFF160JQZ 177 bp overlap

ChIP GM12878 ENCFF160JQZ 422 bp overlap

POLR2A 12 datasets

ChIP GM12878 ENCFF521FXC 88 bp overlap

ChIP GM12878 ENCFF521FXC 461 bp overlap

ChIP GM12878 ENCFF521FXC 561 bp overlap

ChIP GM12878 ENCFF899QYP 552 bp overlap

ChIP GM12878 ENCFF899QYP 317 bp overlap

ChIP GM18505 ENCFF311CYB 438 bp overlap

ChIP GM18505 ENCFF311CYB 236 bp overlap

ChIP GM23338 ENCFF450WCS 186 bp overlap

ChIP H1 ENCFF566JSR 352 bp overlap

ChIP H1 ENCFF770YBQ 471 bp overlap

ChIP K562 ENCFF215CWW 409 bp overlap

ChIP thyroid gland ENCFF979LRR 384 bp overlap

POU2F3 1 dataset

ChIP NCI-H1048 GSE115123.POU2F3.NCI-H1048 151 bp overlap

POU5F1 9 datasets

ChIP DE_D1 DED1-OCT4_Batch_II 446 bp overlap

ChIP GM23338 ENCFF333SNB 283 bp overlap

ChIP HUES-8 GSE109524.POU5F1.HUES-8 666 bp overlap

ChIP WA01 ENCSR000BMU.POU5F1.WA01 231 bp overlap

ChIP hESC ENCSR264RJX.POU5F1.hESC 260 bp overlap

ChIP hESC_NAIVE GSE69646.POU5F1.hESC_NAIVE 374 bp overlap

ChIP hESC_PRIMED GSE69646.POU5F1.hESC_PRIMED 520 bp overlap

ChIP hiPSC GSE56567.POU5F1.hiPSC 252 bp overlap

ChIP hiPSC_3s2 GSE81899.POU5F1.hiPSC_3s2 228 bp overlap

POU5F1_M 1 dataset

ChIP DE_D1 DED1-OCT4-M_Batch_II 572 bp overlap

PRDM10 1 dataset

ChIP K562 ENCFF740YLK 398 bp overlap

RBBP5 2 datasets

ChIP WA01 ENCSR000AQC.RBBP5.WA01 377 bp overlap

ChIP WA01 ENCSR000AQC.RBBP5.WA01 141 bp overlap

ChIP SW480_16h_TNFa GSE102796.RELA.SW480_16h_TNFa 284 bp overlap

ChIP GM23338 ENCFF024TCL 265 bp overlap

ChIP WA09 GSE105028.RNF2.WA09 229 bp overlap

RPA2_phospho 1 dataset

ChIP HeLa GSE108172.RPA2_phospho.HeLa 128 bp overlap

ChIP WA01 GSE104690.RYBP.WA01 640 bp overlap

SALL1 1 dataset

ChIP HepG2 ENCFF426MCK 326 bp overlap

SAP30 2 datasets

ChIP H1 ENCFF149IOE 319 bp overlap

ChIP WA01 ENCSR000ATR.SAP30.WA01 245 bp overlap

SIN3A 4 datasets

ChIP H1 ENCFF042ZSL 230 bp overlap

ChIP H1 ENCFF896IJG 244 bp overlap

ChIP WA01 ENCSR000EBO.SIN3A.WA01 244 bp overlap

ChIP WA01 ENCSR000BIS.SIN3A.WA01 190 bp overlap

SMAD1 1 dataset

ChIP Hep-G2 ENCSR213QOZ.SMAD1.Hep-G2 209 bp overlap

SMAD2-3 3 datasets

ChIP HUES-8_DE GSE109524.SMAD2-3.HUES-8_DE 255 bp overlap

ChIP HUES-8_DE_JNKi GSE109524.SMAD2-3.HUES-8_DE_JNKi 332 bp overlap

ChIP HUES-8_DE_ctrl GSE109524.SMAD2-3.HUES-8_DE_ctrl 411 bp overlap

SMAD2_3 3 datasets

ChIP DE_D1 S07-DE-d1-SMAD2_3-exp1 460 bp overlap

ChIP DE_D1 S12-DE-d1-SMAD2_3-exp1 336 bp overlap

ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 199 bp overlap

SMARCA4 2 datasets

ChIP hiPSC GSE124903.SMARCA4.hiPSC 221 bp overlap

ChIP hiPSC_WT GSE124903.SMARCA4.hiPSC_WT 312 bp overlap

SNAI2 1 dataset

ChIP keratinocyte_LacZ GSE55421.SNAI2.keratinocyte_LacZ 187 bp overlap

SNRNP70 1 dataset

ChIP K-562 ENCSR754ZHU.SNRNP70.K-562 181 bp overlap

SOX17_M 1 dataset

ChIP DE_D2 DED2-SOX17-M_Batch_II 505 bp overlap

SOX2 4 datasets

ChIP LK2_GFP GSE137459.SOX2.LK2_GFP 301 bp overlap

ChIP hESC GSE69479.SOX2.hESC 186 bp overlap

ChIP hESC GSE18292.SOX2.hESC 131 bp overlap

ChIP hiPSC GSE56567.SOX2.hiPSC 297 bp overlap

ChIP WA01 ENCSR000BIR.SP1.WA01 443 bp overlap

ChIP H1 ENCFF473YOB 463 bp overlap

ChIP WA01 ENCSR000BQV.SP4.WA01 381 bp overlap

STAT5A 1 dataset

ChIP GM12878 ENCSR000BQZ.STAT5A.GM12878 216 bp overlap

SUPT5H 2 datasets

ChIP HCT-116_DMSO GSE138548.SUPT5H.HCT-116_DMSO 107 bp overlap

ChIP HeLa_DOX GSE125534.SUPT5H.HeLa_DOX 53 bp overlap

SUPT6H 1 dataset

ChIP HCT-116 GSE130509.SUPT6H.HCT-116 379 bp overlap

TAF1 4 datasets

ChIP H1 ENCFF478SZO 485 bp overlap

ChIP WA01 ENCSR000BHO.TAF1.WA01 146 bp overlap

ChIP WA01 ENCSR000BHO.TAF1.WA01 159 bp overlap

ChIP WA01 ENCSR000BHO.TAF1.WA01 152 bp overlap

ChIP PRIMA2 GSE33850.TAL1.PRIMA2 159 bp overlap

TARDBP 1 dataset

ChIP HepG2 ENCFF356JNC 358 bp overlap

ChIP H1 ENCFF859IIO 377 bp overlap

ChIP H1 ENCFF859IIO 298 bp overlap

ChIP WA01 ENCSR000ECB.TBP.WA01 381 bp overlap

ChIP hESC GSE122298.TBP.hESC 438 bp overlap

ChIP hESC_10h GSE122298.TBP.hESC_10h 119 bp overlap

ChIP hESC_2h GSE122298.TBP.hESC_2h 228 bp overlap

ChIP hESC_8h GSE122298.TBP.hESC_8h 152 bp overlap

ChIP HepG2 ENCFF811TLA 135 bp overlap

TCF12 3 datasets

ChIP H1 ENCFF203EBH 244 bp overlap

ChIP WA01 ENCSR000BIT.TCF12.WA01 78 bp overlap

ChIP WA01 ENCSR000BIT.TCF12.WA01 479 bp overlap

ChIP NPC GSE154479.TCF3.NPC 474 bp overlap

TCF7 2 datasets

ChIP K-562 ENCSR863KUB.TCF7.K-562 193 bp overlap

ChIP K562 ENCFF372PUR 331 bp overlap

TCF7L2 1 dataset

ChIP K562 ENCFF543OSB 281 bp overlap

TP53 2 datasets

ChIP H9_mesoderm GSE142050.TP53.H9_mesoderm 347 bp overlap

ChIP SW480_0h_TNFa GSE102796.TP53.SW480_0h_TNFa 163 bp overlap

USF1 2 datasets

ChIP H1 ENCFF090WVU 241 bp overlap

ChIP WA01 ENCSR000BIU.USF1.WA01 279 bp overlap

ChIP H1 ENCFF524BTL 269 bp overlap

ChIP WA01 ENCSR000BKD.YY1.WA01 478 bp overlap

ZBTB11 2 datasets

ChIP K-562 ENCSR331GDC.ZBTB11.K-562 130 bp overlap

ChIP K562 ENCFF648EZG 318 bp overlap

ZBTB33 1 dataset

ChIP WTC11 ENCFF048CFR 315 bp overlap

ZBTB40 1 dataset

ChIP K562 ENCFF952IUD 377 bp overlap

ChIP K-562 ENCSR004GKA.ZEB2.K-562 478 bp overlap

ChIP HepG2 ENCFF016NZF 458 bp overlap

ChIP HepG2 ENCFF106ELT 394 bp overlap

ZNF18 1 dataset

ChIP K-562 GSE97661.ZNF18.K-562 159 bp overlap

ZNF232 1 dataset

ChIP WTC11 ENCFF901BGD 349 bp overlap

ZNF274 1 dataset

ChIP Hep-G2 ENCSR871VNN.ZNF274.Hep-G2 95 bp overlap

ZNF320 2 datasets

ChIP HEK293 GSE76494.ZNF320.HEK293 166 bp overlap

ChIP HEK293T GSE78099.ZNF320.HEK293T 107 bp overlap

ZNF33B 1 dataset

ChIP HepG2 ENCFF921KSE 427 bp overlap

ZNF341 1 dataset

ChIP HEK293 ENCSR185FOY.ZNF341.HEK293 272 bp overlap

ZNF407 1 dataset

ChIP Hep-G2 ENCSR005WGY.ZNF407.Hep-G2 162 bp overlap

ZNF485 1 dataset

ChIP HEK293T GSE78099.ZNF485.HEK293T 119 bp overlap

ZNF501 1 dataset

ChIP Hep-G2 ENCSR227PHM.ZNF501.Hep-G2 125 bp overlap

ZNF671 1 dataset

ChIP WTC11 ENCFF053HBV 80 bp overlap

ZNF883 1 dataset

ChIP Hep-G2 ENCSR882YYL.ZNF883.Hep-G2 191 bp overlap