chr3 : 55,489,853 55,490,182
329 bp 125 TFs 2 linked genes
This 329 bp open chromatin element is linked to WNT5A-AS1 and WNT5A and is bound by 125 transcription factors.
Linked Genes
2 genes
Gene Expression Dist. to TSS Distance Link type
WNT5A-AS1 2.2 kb Proximal Proximity
WNT5A 2.5 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.
chr3:55,484,853 – 55,495,182
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
125 transcription factors
Source
Cell type
AR 2 datasets
ChIP MDA-MB-453_FOXA1 ERP003503.AR.MDA-MB-453_FOXA1 205 bp overlap
ChIP prostate_fetal-fibroblast GSE90772.AR.prostate_fetal-fibroblast 329 bp overlap
ARNT 1 dataset
ChIP MCF-7_Ctrl GSE85352.ARNT.MCF-7_Ctrl 259 bp overlap
ASH2L 1 dataset
ChIP H1 ENCFF399KAM 157 bp overlap
BAF155 1 dataset
ChIP VCaP_shARID1A GSE110655.BAF155.VCaP_shARID1A 52 bp overlap
BRD4 8 datasets
ChIP COLO-741 GSE73319.BRD4.COLO-741 220 bp overlap
ChIP HAP1 GSE108387.BRD4.HAP1 158 bp overlap
ChIP LPS141 GSE111253.BRD4.LPS141 162 bp overlap
ChIP PC-3_GDC-R GSE137207.BRD4.PC-3_GDC-R 121 bp overlap
ChIP PC-3_GDC-R_SAHA GSE137207.BRD4.PC-3_GDC-R_SAHA 264 bp overlap
ChIP SW480 GSE73319.BRD4.SW480 329 bp overlap
ChIP SW480 GSE110473.BRD4.SW480 329 bp overlap
ChIP SW480_16h_TNF-a GSE110473.BRD4.SW480_16h_TNF-a 329 bp overlap
BRD9 1 dataset
ChIP G-401 GSE120234.BRD9.G-401 219 bp overlap
CBFB 1 dataset
ChIP SKNO-1 GSE23730.CBFB.SKNO-1 224 bp overlap
CDKN1B 2 datasets
ChIP MDA-MB-231 GSE112444.CDKN1B.MDA-MB-231 234 bp overlap
ChIP MDA-MB-231_p27CK-DD GSE112444.CDKN1B.MDA-MB-231_p27CK-DD 286 bp overlap
CHD1 1 dataset
ChIP WA01 ENCSR000AQK.CHD1.WA01 153 bp overlap
CHD2 3 datasets
ChIP HeLa-S3 ENCFF078QRQ 101 bp overlap
ChIP HeLa-S3 ENCFF078QRQ 306 bp overlap
ChIP HeLa-S3 ENCSR000ECP.CHD2.HeLa-S3 119 bp overlap
CTCF 5 datasets
ChIP AG09309 ENCFF478XPS 96 bp overlap
ChIP HEK293 ENCSR617IFZ.CTCF.HEK293 210 bp overlap
ChIP HeLa-S3_biotin GSE108869.CTCF.HeLa-S3_biotin 150 bp overlap
ChIP hESC_D5 GSE116862.CTCF.hESC_D5 230 bp overlap
ChIP keratinocyte GSE154221.CTCF.keratinocyte 274 bp overlap
CTCFL 1 dataset
ChIP FT282 GSE131931.CTCFL.FT282 211 bp overlap
CTCF_s 1 dataset
ChIP HeLa-S3_biotin GSE108869.CTCF_s.HeLa-S3_biotin 218 bp overlap
Cebpa 1 dataset
ChIP BLaER1 ENCFF460KDD 293 bp overlap
DAXX 1 dataset
ChIP PC-3 GSE68647.DAXX.PC-3 241 bp overlap
E2F1 1 dataset
ChIP U-87MG_GBM GSE99171.E2F1.U-87MG_GBM 192 bp overlap
E2F6 2 datasets
ChIP H1 ENCFF785DWK 263 bp overlap
ChIP WA01 ENCSR000BSI.E2F6.WA01 203 bp overlap
ERG 2 datasets
ChIP VCaP_shARID1A GSE110655.ERG.VCaP_shARID1A 206 bp overlap
ChIP VCaP_shERG GSE110655.ERG.VCaP_shERG 58 bp overlap
ESR1 1 dataset
ChIP MCF-7_RUNX2_DOX GSE86538.ESR1.MCF-7_RUNX2_DOX 232 bp overlap
ETS1 1 dataset
ChIP cardiomyocyte_D9 GSE129986.ETS1.cardiomyocyte_D9 218 bp overlap
EZH2 8 datasets
ChIP GM23338 ENCFF613YON 63 bp overlap
ChIP H1 ENCFF232NZA 329 bp overlap
ChIP H1 ENCFF232NZA 329 bp overlap
ChIP HUVEC-C GSE109625.EZH2.HUVEC-C 263 bp overlap
ChIP endothelial cell of umbilical vein ENCFF539AKL 67 bp overlap
ChIP endothelial cell of umbilical vein ENCFF539AKL 329 bp overlap
ChIP neural progenitor cell ENCFF018MKA 249 bp overlap
ChIP neural progenitor cell ENCFF018MKA 329 bp overlap
FEZF1 4 datasets
ChIP HEK293 ENCFF528YED 201 bp overlap
ChIP HEK293 ENCFF528YED 171 bp overlap
ChIP HEK293 ENCSR827NWO.FEZF1.HEK293 329 bp overlap
ChIP HEK293 GSE76494.FEZF1.HEK293 229 bp overlap
FOXP4 1 dataset
ChIP WTC11 ENCFF708TAF 236 bp overlap
Foxn1 1 dataset
Motif DE_24h DE_24h-Foxn1_MA1684.1 6 bp overlap
GATA6 3 datasets
ChIP DE_D1 S41-DE-d1-GATA6-exp2 239 bp overlap
ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 137 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.GATA6.HUES-8_DE_ctrl 329 bp overlap
GLIS1 1 dataset
ChIP HEK293 ENCFF299RSE 285 bp overlap
GLIS2 1 dataset
ChIP HEK293 ENCFF446EIF 178 bp overlap
HDAC1 1 dataset
ChIP MCF-7_parental_4-hydroxytamoxifen GSE123284.HDAC1.MCF-7_parental_4-hydroxytamoxifen 218 bp overlap
HDAC2 1 dataset
ChIP WA01 ENCSR000AVB.HDAC2.WA01 247 bp overlap
HIF1A 1 dataset
ChIP PC-3_hypoxia_siCtrl GSE106305.HIF1A.PC-3_hypoxia_siCtrl 290 bp overlap
IKZF3 2 datasets
ChIP HEK293 ENCFF518OXG 254 bp overlap
ChIP HEK293 ENCSR304AMN.IKZF3.HEK293 241 bp overlap
JARID2 3 datasets
ChIP UTEIPS11 GSE48516.JARID2.UTEIPS11 87 bp overlap
ChIP UTEIPS4 GSE48516.JARID2.UTEIPS4 209 bp overlap
ChIP UTEIPS6 GSE48516.JARID2.UTEIPS6 329 bp overlap
JUN 5 datasets
ChIP DE_D1 S40-DE-d1-JUN-exp2 69 bp overlap
ChIP HUES-8 GSE109524.JUN.HUES-8 142 bp overlap
ChIP MDA-BoM-1833 GSE112444.JUN.MDA-BoM-1833 273 bp overlap
ChIP MDA-BoM-1833_shp27 GSE112444.JUN.MDA-BoM-1833_shp27 273 bp overlap
ChIP MDA-MB-231 GSE112444.JUN.MDA-MB-231 257 bp overlap
KDM4A 1 dataset
ChIP H1 ENCFF078LED 181 bp overlap
KDM5B 2 datasets
ChIP SUM159 GSE46055.KDM5B.SUM159 138 bp overlap
ChIP SUM185_SHCTCF GSE46055.KDM5B.SUM185_SHCTCF 150 bp overlap
KLF1 1 dataset
ChIP HEK293 ENCSR859BMR.KLF1.HEK293 212 bp overlap
KLF17 1 dataset
ChIP HEK293 ENCSR065WUF.KLF17.HEK293 190 bp overlap
KLF3 1 dataset
ChIP keratinocyte GSE140991.KLF3.keratinocyte 324 bp overlap
KLF4 1 dataset
ChIP BJ_INDUCED GSE36570.KLF4.BJ_INDUCED 152 bp overlap
KLF7 1 dataset
Motif DE_24h DE_24h-KLF7_MA1959.2 8 bp overlap
KLF8 1 dataset
ChIP HEK293 ENCSR635NOQ.KLF8.HEK293 263 bp overlap
KMT2A 1 dataset
ChIP HEK293T_N-term_C49 GSE90762.KMT2A.HEK293T_N-term_C49 329 bp overlap
L3MBTL2 3 datasets
ChIP HEK293T ENCFF482NJV 213 bp overlap
ChIP HEK293T ENCFF482NJV 329 bp overlap
ChIP HEK293T ENCSR862PNL.L3MBTL2.HEK293T 134 bp overlap
MAX 6 datasets
ChIP H1 ENCFF914VQY 157 bp overlap
ChIP HeLa-S3 ENCFF398RFF 311 bp overlap
ChIP HeLa-S3 ENCSR000EZF.MAX.HeLa-S3 216 bp overlap
ChIP HeLa-S3 ENCSR000ECN.MAX.HeLa-S3 143 bp overlap
ChIP MCF-7 ENCSR000BUL.MAX.MCF-7 131 bp overlap
ChIP WTC11 ENCFF223QFY 329 bp overlap
MAZ 1 dataset
ChIP HEK293 GSE76494.MAZ.HEK293 159 bp overlap
MED1 2 datasets
ChIP G296S_4 GSE85628.MED1.G296S_4 329 bp overlap
ChIP U-87MG GSE36354.MED1.U-87MG 207 bp overlap
MXI1 1 dataset
Motif DE_24h DE_24h-MXI1_MA1108.3 6 bp overlap
MYC 1 dataset
ChIP HeLa-S3 ENCSR000EZD.MYC.HeLa-S3 125 bp overlap
MYCN 2 datasets
ChIP Kelly GSE94822.MYCN.Kelly 141 bp overlap
ChIP Kelly GSE94782.MYCN.Kelly 111 bp overlap
MYOD1 1 dataset
ChIP IMR-90_GM GSE128527.MYOD1.IMR-90_GM 223 bp overlap
NANOG 1 dataset
ChIP HUES-8 GSE109524.NANOG.HUES-8 329 bp overlap
NELFE 1 dataset
ChIP HeLa GSE125534.NELFE.HeLa 225 bp overlap
NR2C2 1 dataset
Motif DE_24h DE_24h-NR2C2_MA0504.2 14 bp overlap
OSR2 2 datasets
ChIP HEK293 ENCSR324LTM.OSR2.HEK293 329 bp overlap
ChIP HEK293 GSE76494.OSR2.HEK293 237 bp overlap
PATZ1 2 datasets
ChIP HEK293 ENCFF016MNJ 316 bp overlap
ChIP HEK293 ENCSR966ULI.PATZ1.HEK293 322 bp overlap
PHIP 2 datasets
ChIP HEK293_ab833 GSE101646.PHIP.HEK293_ab833 62 bp overlap
ChIP HEK293_ab833 GSE101646.PHIP.HEK293_ab833 184 bp overlap
POLR2A 2 datasets
ChIP spleen ENCFF446ZGT 209 bp overlap
ChIP upper lobe of left lung ENCFF603FIH 89 bp overlap
POU5F1 3 datasets
ChIP DE_D1 DED1-OCT4_Batch_II 249 bp overlap
ChIP HUES-8 GSE109524.POU5F1.HUES-8 141 bp overlap
ChIP NCCIT_SNF5 GSE36134.POU5F1.NCCIT_SNF5 141 bp overlap
POU5F1_M 1 dataset
ChIP DE_D1 DED1-OCT4-M_Batch_II 221 bp overlap
PRDM9 1 dataset
Motif DE_24h DE_24h-PRDM9_MA1723.2 20 bp overlap
RAD21 3 datasets
ChIP HEK293_siCtrl GSE130135.RAD21.HEK293_siCtrl 211 bp overlap
ChIP HEK293_siE1A GSE130135.RAD21.HEK293_siE1A 329 bp overlap
ChIP HEK293_siYAP GSE130135.RAD21.HEK293_siYAP 174 bp overlap
RBBP5 2 datasets
ChIP H1 ENCFF905HFL 74 bp overlap
ChIP WA01 ENCSR000AQC.RBBP5.WA01 278 bp overlap
RCOR1 1 dataset
ChIP keratinocyte_diff GSE57702.RCOR1.keratinocyte_diff 55 bp overlap
RELA 2 datasets
ChIP 786-O GSE86092.RELA.786-O 268 bp overlap
ChIP SW480_16h_TNFa GSE102796.RELA.SW480_16h_TNFa 278 bp overlap
RNF2 3 datasets
ChIP H1 ENCFF239FFS 144 bp overlap
ChIP H1 ENCFF239FFS 329 bp overlap
ChIP HUES-64 GSE104059.RNF2.HUES-64 273 bp overlap
RUNX1 1 dataset
ChIP epididymis_HEE GSE109061.RUNX1.epididymis_HEE 303 bp overlap
RUNX1T1 1 dataset
ChIP Kasumi-1 GSE102697.RUNX1T1.Kasumi-1 156 bp overlap
RUNX2 1 dataset
ChIP LNCaP-C4-2B GSE33889.RUNX2.LNCaP-C4-2B 72 bp overlap
SMAD2-3 2 datasets
ChIP HUES-8_DE_JNKi GSE109524.SMAD2-3.HUES-8_DE_JNKi 266 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.SMAD2-3.HUES-8_DE_ctrl 329 bp overlap
SMAD2_3 2 datasets
ChIP DE_D1 S12-DE-d1-SMAD2_3-exp1 183 bp overlap
ChIP DE_D1 S39-DE-d1-SMAD2_3-exp2 303 bp overlap
SMAD3 1 dataset
ChIP hESC GSE29422.SMAD3.hESC 239 bp overlap
SMAD4 1 dataset
ChIP Caco-2 GSE112946.SMAD4.Caco-2 126 bp overlap
SMARCC1 3 datasets
ChIP HeLa-S3 ENCSR000EDM.SMARCC1.HeLa-S3 217 bp overlap
ChIP SYO-1_shRING1A-B GSE139053.SMARCC1.SYO-1_shRING1A-B 75 bp overlap
ChIP SYO-1_shRING1A-B GSE139053.SMARCC1.SYO-1_shRING1A-B 71 bp overlap
SP1 2 datasets
ChIP HEK293 GSE76494.SP1.HEK293 170 bp overlap
ChIP WTC11 ENCFF688PEU 84 bp overlap
SP2 3 datasets
ChIP HEK293 ENCFF181QXT 196 bp overlap
ChIP HEK293 ENCSR807LQP.SP2.HEK293 298 bp overlap
ChIP HEK293 GSE76494.SP2.HEK293 226 bp overlap
SP3 2 datasets
ChIP HEK293 ENCFF087XLA 329 bp overlap
ChIP HEK293 ENCSR141PZA.SP3.HEK293 182 bp overlap
SP4 2 datasets
Motif DE_24h DE_24h-SP4_MA0685.2 9 bp overlap
ChIP HEK293 GSE76494.SP4.HEK293 212 bp overlap
SS18-SSX 1 dataset
ChIP fibroblast_78aa-SSX-Tail GSE139053.SS18-SSX.fibroblast_78aa-SSX-Tail 127 bp overlap
STAG1 1 dataset
ChIP MCF-7_E2_SHCTCF ERP000209.STAG1.MCF-7_E2_SHCTCF 121 bp overlap
STAT3 1 dataset
ChIP MDA-MB-157_EtOH GSE85579.STAT3.MDA-MB-157_EtOH 206 bp overlap
SUPT5H 3 datasets
ChIP DLD-1_NELFCD-AID GSE144786.SUPT5H.DLD-1_NELFCD-AID 205 bp overlap
ChIP DLD-1_NELFCD-AID_treated GSE144786.SUPT5H.DLD-1_NELFCD-AID_treated 329 bp overlap
ChIP HeLa GSE125534.SUPT5H.HeLa 108 bp overlap
SUZ12 4 datasets
ChIP GM12878 ENCSR091BOQ.SUZ12.GM12878 279 bp overlap
ChIP H1 ENCFF881NFR 290 bp overlap
ChIP hiPSC GSE124903.SUZ12.hiPSC 327 bp overlap
ChIP hiPSC_WT GSE124903.SUZ12.hiPSC_WT 172 bp overlap
TFAP2A 1 dataset
ChIP WA09 GSE105081.TFAP2A.WA09 177 bp overlap
TFAP2C 2 datasets
ChIP HCC1954 GSE126897.TFAP2C.HCC1954 97 bp overlap
ChIP WA09 GSE105081.TFAP2C.WA09 141 bp overlap
TP53 1 dataset
ChIP SW480_shp53_16h_TNF-a GSE115985.TP53.SW480_shp53_16h_TNF-a 274 bp overlap
TP63 2 datasets
ChIP keratinocyte GSE33571.TP63.keratinocyte 151 bp overlap
ChIP keratinocyte_diff GSE33571.TP63.keratinocyte_diff 141 bp overlap
TRIM28 3 datasets
ChIP AF22 GSE84259.TRIM28.AF22 152 bp overlap
ChIP HEK293 ENCSR000EUZ.TRIM28.HEK293 306 bp overlap
ChIP hESC GSE115387.TRIM28.hESC 144 bp overlap
USF1 1 dataset
ChIP WA01 ENCSR000BIU.USF1.WA01 163 bp overlap
WT1 1 dataset
ChIP HEK293 ENCSR966PJJ.WT1.HEK293 297 bp overlap
YY1 2 datasets
ChIP Hep-G2_NC GSE120104.YY1.Hep-G2_NC 248 bp overlap
ChIP Hep-G2_RBM25-KD GSE120104.YY1.Hep-G2_RBM25-KD 193 bp overlap
YY1AP1 1 dataset
ChIP PC-9_1DF GSE131687.YY1AP1.PC-9_1DF 124 bp overlap
ZBTB20 1 dataset
ChIP HEK293 ENCFF524ADK 310 bp overlap
ZBTB26 2 datasets
ChIP HEK293 ENCFF752TCU 329 bp overlap
ChIP HEK293 ENCSR229DYF.ZBTB26.HEK293 261 bp overlap
ZBTB48 2 datasets
ChIP HEK293 ENCFF809BPK 307 bp overlap
ChIP HEK293 ENCSR781EQJ.ZBTB48.HEK293 279 bp overlap
ZBTB8A 3 datasets
ChIP HEK293 ENCFF303WRD 251 bp overlap
ChIP HEK293 ENCFF303WRD 114 bp overlap
ChIP HEK293 ENCSR481FEC.ZBTB8A.HEK293 329 bp overlap
ZEB2 1 dataset
ChIP HEK293 ENCSR417VWF.ZEB2.HEK293 285 bp overlap
ZFP64 1 dataset
ChIP HEK293 GSE76494.ZFP64.HEK293 163 bp overlap
ZFP69B 2 datasets
ChIP HEK293 ENCFF942LFP 296 bp overlap
ChIP HEK293 ENCSR381VYR.ZFP69B.HEK293 324 bp overlap
ZIC2 1 dataset
ChIP HEK293 ENCFF033NQQ 130 bp overlap
ZNF148 1 dataset
Motif DE_24h DE_24h-ZNF148_MA1653.2 10 bp overlap
ZNF189 1 dataset
ChIP HEK293 ENCFF638TIB 329 bp overlap
ZNF213 1 dataset
Motif DE_24h DE_24h-ZNF213_MA2121.1 12 bp overlap
ZNF281 1 dataset
Motif DE_24h DE_24h-ZNF281_MA1630.3 10 bp overlap
ZNF335 2 datasets
ChIP HEK293 ENCFF784SLD 310 bp overlap
ChIP HEK293 ENCSR328SUD.ZNF335.HEK293 329 bp overlap
ZNF341 3 datasets
ChIP HEK293 ENCFF944VMC 212 bp overlap
ChIP HEK293 ENCSR185FOY.ZNF341.HEK293 266 bp overlap
ChIP HEK293 GSE76494.ZNF341.HEK293 196 bp overlap
ZNF530 1 dataset
Motif DE_24h DE_24h-ZNF530_MA1981.2 14 bp overlap
ZNF534 1 dataset
ChIP HEK293T GSE78099.ZNF534.HEK293T 96 bp overlap
ZNF692 2 datasets
ChIP HEK293 ENCFF040AZE 329 bp overlap
ChIP HEK293 ENCSR418MKG.ZNF692.HEK293 329 bp overlap