chr4 : 4,854,580 – 4,855,148
568 bp 69 TFs 1 linked gene
This 568 bp open chromatin element is linked to MSX1 and is bound by 69 transcription factors.
Linked Genes
1 gene
Gene↕ Expression Dist. to TSS↑ Distance↕ Link type↕
MSX1 4.5 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.
chr4:4,849,580 – 4,860,148
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
69 transcription factors
Source
Cell type
AGO1 1 dataset
ChIP Hep-G2 ENCSR555ZMV.AGO1.Hep-G2 183 bp overlap
AR 1 dataset
ChIP prostate_fetal-fibroblast GSE90772.AR.prostate_fetal-fibroblast 247 bp overlap
ARID2 1 dataset
ChIP NGP_ARID1A-mut2 GSE134626.ARID2.NGP_ARID1A-mut2 152 bp overlap
ASXL3 1 dataset
ChIP NCI-H1963_Ab1 GSE145028.ASXL3.NCI-H1963_Ab1 245 bp overlap
BCOR 1 dataset
ChIP WA01_KDM2B_KO GSE104690.BCOR.WA01_KDM2B_KO 568 bp overlap
BMPR1A 1 dataset
ChIP HUVEC-C GSE60156.BMPR1A.HUVEC-C 254 bp overlap
BRD1 1 dataset
ChIP HUES-64 GSE104059.BRD1.HUES-64 201 bp overlap
BRD4 5 datasets
ChIP 22Rv1_DHT-DMSO GSE118247.BRD4.22Rv1_DHT-DMSO 258 bp overlap
ChIP CLL_patient2 GSE109411.BRD4.CLL_patient2 284 bp overlap
ChIP Kelly_sensitive GSE103030.BRD4.Kelly_sensitive 200 bp overlap
ChIP NCI-H1963_dBET6 GSE145028.BRD4.NCI-H1963_dBET6 298 bp overlap
ChIP retina_AB1-FW15 GSE86981.BRD4.retina_AB1-FW15 434 bp overlap
CBX2 1 dataset
ChIP K-562 ENCSR000ATU.CBX2.K-562 306 bp overlap
CBX7 2 datasets
ChIP hESC GSE133412.CBX7.hESC 514 bp overlap
ChIP hESC_TKO GSE133412.CBX7.hESC_TKO 484 bp overlap
CBX8 1 dataset
ChIP H1 ENCFF095JHA 431 bp overlap
CEBPB 1 dataset
ChIP Ishikawa ENCSR000BTT.CEBPB.Ishikawa 147 bp overlap
CTNNB1 2 datasets
ChIP hiPSC_D2 GSE132532.CTNNB1.hiPSC_D2 289 bp overlap
ChIP hiPSC_TT-neg_D2 GSE132532.CTNNB1.hiPSC_TT-neg_D2 303 bp overlap
EP300 1 dataset
ChIP Ishikawa ENCSR000BUE.EP300.Ishikawa 143 bp overlap
ESR1 31 datasets
Motif DE_12h DE_12h-ESR1_MA0112.4 15 bp overlap
ChIP Ishikawa ENCSR000BIY.ESR1.Ishikawa 327 bp overlap
ChIP Ishikawa ENCSR000BKL.ESR1.Ishikawa 322 bp overlap
ChIP Ishikawa ENCSR000BQR.ESR1.Ishikawa 242 bp overlap
ChIP Ishikawa_C1-12 GSE147141.ESR1.Ishikawa_C1-12 516 bp overlap
ChIP Ishikawa_C1-5 GSE147141.ESR1.Ishikawa_C1-5 366 bp overlap
ChIP Ishikawa_C2-14 GSE147141.ESR1.Ishikawa_C2-14 524 bp overlap
ChIP Ishikawa_C2-3 GSE147141.ESR1.Ishikawa_C2-3 380 bp overlap
ChIP Ishikawa_DMSO_D538G_clone3 GSE132426.ESR1.Ishikawa_DMSO_D538G_clone3 461 bp overlap
ChIP Ishikawa_Dex_E2 GSE109891.ESR1.Ishikawa_Dex_E2 312 bp overlap
ChIP Ishikawa_E2 GSE132426.ESR1.Ishikawa_E2 554 bp overlap
ChIP Ishikawa_E2 GSE109891.ESR1.Ishikawa_E2 334 bp overlap
ChIP Ishikawa_E2-1h GSE129803.ESR1.Ishikawa_E2-1h 498 bp overlap
ChIP Ishikawa_E2_D538G GSE132426.ESR1.Ishikawa_E2_D538G 568 bp overlap
ChIP Ishikawa_E2_D538G_clone2 GSE132426.ESR1.Ishikawa_E2_D538G_clone2 568 bp overlap
ChIP Ishikawa_E2_clone2 GSE132426.ESR1.Ishikawa_E2_clone2 538 bp overlap
ChIP Ishikawa_ETV4-KO1 GSE129803.ESR1.Ishikawa_ETV4-KO1 372 bp overlap
ChIP Ishikawa_ETV4-KO1_Mili GSE129803.ESR1.Ishikawa_ETV4-KO1_Mili 459 bp overlap
ChIP Ishikawa_ETV4-KO2_Mili GSE129803.ESR1.Ishikawa_ETV4-KO2_Mili 493 bp overlap
ChIP Ishikawa_ETV4-KO2_Rescue GSE129803.ESR1.Ishikawa_ETV4-KO2_Rescue 490 bp overlap
ChIP Ishikawa_ETV4-OE GSE129803.ESR1.Ishikawa_ETV4-OE 457 bp overlap
ChIP Ishikawa_M1-66 GSE147141.ESR1.Ishikawa_M1-66 240 bp overlap
ChIP Ishikawa_M1-9-1 GSE147141.ESR1.Ishikawa_M1-9-1 323 bp overlap
ChIP Ishikawa_M2-3 GSE147141.ESR1.Ishikawa_M2-3 449 bp overlap
ChIP Ishikawa_M2-5 GSE147141.ESR1.Ishikawa_M2-5 301 bp overlap
ChIP Ishikawa_siETV4-72h GSE129803.ESR1.Ishikawa_siETV4-72h 525 bp overlap
ChIP Ishikawa_siNTC-72h GSE129803.ESR1.Ishikawa_siNTC-72h 501 bp overlap
ChIP Ishikawa_siNTC-96h GSE129803.ESR1.Ishikawa_siNTC-96h 448 bp overlap
ChIP endometrioid-adenocarcinoma_tumor_6 GSE94031.ESR1.endometrioid-adenocarcinoma_tumor_6 278 bp overlap
ChIP primary-endometrium-cancer_E1_DSG GSE114737.ESR1.primary-endometrium-cancer_E1_DSG 308 bp overlap
ChIP primary-endometrium-cancer_E2_DSG GSE114737.ESR1.primary-endometrium-cancer_E2_DSG 291 bp overlap
ESR2 1 dataset
Motif DE_12h DE_12h-ESR2_MA0258.2 15 bp overlap
EZH2 28 datasets
ChIP B-cell ENCSR000AUZ.EZH2.B-cell 349 bp overlap
ChIP DU145_SH4 GSE135623.EZH2.DU145_SH4 231 bp overlap
ChIP GM23338 ENCFF613YON 568 bp overlap
ChIP GM23338 ENCFF886DXX 211 bp overlap
ChIP H1 ENCFF232NZA 568 bp overlap
ChIP HUVEC-C_VEGF_12h GSE109625.EZH2.HUVEC-C_VEGF_12h 502 bp overlap
ChIP LNCaP-abl GSE39459.EZH2.LNCaP-abl 540 bp overlap
ChIP RCH-ACV GSE135024.EZH2.RCH-ACV 299 bp overlap
ChIP SK-N-SH ENCFF657FZK 129 bp overlap
ChIP SK-N-SH ENCFF657FZK 366 bp overlap
ChIP SU-DHL-6 GSE134136.EZH2.SU-DHL-6 360 bp overlap
ChIP THP-1 GSE135024.EZH2.THP-1 454 bp overlap
ChIP astrocyte ENCFF365JTP 428 bp overlap
ChIP endothelial cell of umbilical vein ENCFF539AKL 568 bp overlap
ChIP epithelial_mammary ENCSR000ARE.EZH2.epithelial_mammary 293 bp overlap
ChIP fibroblast of dermis ENCFF029VZK 568 bp overlap
ChIP fibroblast of dermis ENCFF029VZK 534 bp overlap
ChIP fibroblast of dermis ENCFF029VZK 139 bp overlap
ChIP fibroblast of lung ENCFF479BAW 365 bp overlap
ChIP fibroblast_LUNG ENCSR000ARO.EZH2.fibroblast_LUNG 513 bp overlap
ChIP hepatocyte ENCFF552DZB 111 bp overlap
ChIP keratinocyte ENCFF070STK 215 bp overlap
ChIP keratinocyte ENCFF070STK 262 bp overlap
ChIP mammary epithelial cell ENCFF224GAI 316 bp overlap
ChIP myotube ENCSR000ASZ.EZH2.myotube 538 bp overlap
ChIP neural progenitor cell ENCFF018MKA 568 bp overlap
ChIP neural progenitor cell ENCFF472NFV 568 bp overlap
ChIP peripheral-blood-mononuclear-cell_B-cell GSE115772.EZH2.peripheral-blood-mononuclear-cell_B-cell 315 bp overlap
EZH2_phosphoT487 1 dataset
ChIP DOHH2 ENCSR562NOP.EZH2_phosphoT487.DOHH2 381 bp overlap
GATA6 6 datasets
ChIP DE_D1 S09-DE-d1-GATA6-exp1 535 bp overlap
ChIP DE_D1 S14-DE-d1-GATA6-exp1 533 bp overlap
ChIP DE_D1 S41-DE-d1-GATA6-exp2 552 bp overlap
ChIP DE_D2 S55-DE-d2-GATA6-exp2 297 bp overlap
ChIP HUES-8_DE_JNKi GSE109524.GATA6.HUES-8_DE_JNKi 568 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.GATA6.HUES-8_DE_ctrl 552 bp overlap
HAND2 1 dataset
ChIP SK-N-BE2-C GSE94822.HAND2.SK-N-BE2-C 231 bp overlap
IKZF2 1 dataset
Motif DE_12h DE_12h-IKZF2_MA2326.1 6 bp overlap
ISL1 1 dataset
ChIP SK-N-BE2-C GSE94822.ISL1.SK-N-BE2-C 382 bp overlap
JARID2 2 datasets
ChIP AMIPS8 GSE48516.JARID2.AMIPS8 568 bp overlap
ChIP UTEIPS11 GSE48516.JARID2.UTEIPS11 402 bp overlap
JUN 5 datasets
ChIP DE_D1 S08-DE-d1-JUN-exp1 450 bp overlap
ChIP DE_D1 S13-DE-d1-JUN-exp1 353 bp overlap
ChIP DE_D1 S40-DE-d1-JUN-exp2 359 bp overlap
ChIP DE_D2 S02-DE-d2-JUN-exp1 183 bp overlap
ChIP HUES-8_DE_ctrl GSE109524.JUN.HUES-8_DE_ctrl 449 bp overlap
KDM1A 3 datasets
ChIP H1 ENCFF696SGD 200 bp overlap
ChIP NB4_DMSO GSE128528.KDM1A.NB4_DMSO 162 bp overlap
ChIP pancreatic-progenitor_GT GSE104840.KDM1A.pancreatic-progenitor_GT 68 bp overlap
KLF5 1 dataset
ChIP HEK293_E419K GSE88976.KLF5.HEK293_E419K 190 bp overlap
MAX 1 dataset
ChIP Ishikawa ENCSR000BTY.MAX.Ishikawa 108 bp overlap
MAZ 1 dataset
Motif DE_12h DE_12h-MAZ_MA1522.2 8 bp overlap
MEIS1 2 datasets
ChIP CHRF28811 ERR063469.MEIS1.CHRF28811 138 bp overlap
Motif DE_12h DE_12h-MEIS1_MA0498.3 5 bp overlap
MYCN 1 dataset
ChIP NB-1643 GSE138295.MYCN.NB-1643 530 bp overlap
NANOG 2 datasets
ChIP HUES-8 GSE109524.NANOG.HUES-8 495 bp overlap
ChIP WA01_3IL ERP004238.NANOG.WA01_3IL 297 bp overlap
NELFE 1 dataset
ChIP K-562_HS GSE112379.NELFE.K-562_HS 159 bp overlap
NFIC 1 dataset
ChIP Ishikawa ENCSR000BUT.NFIC.Ishikawa 193 bp overlap
NIPBL 1 dataset
ChIP hESC_WNT3A_ACTIVIN GSE64758.NIPBL.hESC_WNT3A_ACTIVIN 435 bp overlap
NR3C1 1 dataset
ChIP Ishikawa ENCSR000BJC.NR3C1.Ishikawa 184 bp overlap
NRF1 1 dataset
ChIP K-562 ENCSR837EYC.NRF1.K-562 131 bp overlap
OSR2 3 datasets
ChIP HEK293 ENCFF875BDB 421 bp overlap
ChIP HEK293 ENCSR324LTM.OSR2.HEK293 270 bp overlap
ChIP HEK293 GSE76494.OSR2.HEK293 188 bp overlap
POLR2A 1 dataset
ChIP HCT116 ENCFF849NGT 119 bp overlap
POU5F1 3 datasets
ChIP DE_D1 DED1-OCT4_Batch_II 449 bp overlap
ChIP HUES-8 GSE109524.POU5F1.HUES-8 481 bp overlap
ChIP WA01_3IL ERP004238.POU5F1.WA01_3IL 237 bp overlap
POU5F1_M 1 dataset
ChIP DE_D1 DED1-OCT4-M_Batch_II 424 bp overlap
Pparg::Rxra 1 dataset
Motif DE_12h DE_12h-PpargRxra_MA0065.3 13 bp overlap
RARA 3 datasets
ChIP hiPSC_D2 GSE132532.RARA.hiPSC_D2 245 bp overlap
ChIP hiPSC_D3 GSE109172.RARA.hiPSC_D3 373 bp overlap
ChIP hiPSC_D4 GSE109172.RARA.hiPSC_D4 414 bp overlap
RBM25 1 dataset
ChIP K-562 ENCSR791OZM.RBM25.K-562 88 bp overlap
RNF2 2 datasets
ChIP H1 ENCFF239FFS 568 bp overlap
ChIP K-562 ENCSR820GND.RNF2.K-562 339 bp overlap
SMAD2_3 5 datasets
ChIP DE_D1 S07-DE-d1-SMAD2_3-exp1 515 bp overlap
ChIP DE_D1 S12-DE-d1-SMAD2_3-exp1 552 bp overlap
ChIP DE_D1 S39-DE-d1-SMAD2_3-exp2 554 bp overlap
ChIP DE_D2 S01-DE-d2-SMAD2_3-exp1 345 bp overlap
ChIP DE_D2 S53-DE-d2-SMAD2_3-exp2 334 bp overlap
SMARCA4 3 datasets
ChIP NGP GSE134626.SMARCA4.NGP 279 bp overlap
ChIP NGP_ARID1A-mut2 GSE134626.SMARCA4.NGP_ARID1A-mut2 142 bp overlap
ChIP hiPSC GSE124903.SMARCA4.hiPSC 137 bp overlap
SMARCB1 1 dataset
ChIP hiPSC GSE124903.SMARCB1.hiPSC 188 bp overlap
SOX2 2 datasets
ChIP LK2_DNp63 GSE137459.SOX2.LK2_DNp63 265 bp overlap
ChIP LK2_GFP GSE137459.SOX2.LK2_GFP 372 bp overlap
SP7 2 datasets
ChIP HEK293 ENCFF733RBE 254 bp overlap
ChIP HEK293 ENCSR468IJT.SP7.HEK293 331 bp overlap
SS18 1 dataset
ChIP Aska-SS GSE108025.SS18.Aska-SS 391 bp overlap
STAT1_pS727 1 dataset
ChIP SET-2 GSE100566.STAT1_pS727.SET-2 120 bp overlap
SUZ12 7 datasets
ChIP H1 ENCFF881NFR 568 bp overlap
ChIP K-562 ENCSR000AUC.SUZ12.K-562 71 bp overlap
ChIP LNCaP-abl GSE39459.SUZ12.LNCaP-abl 111 bp overlap
ChIP NT2/D1 ENCFF574SXS 110 bp overlap
ChIP NT2/D1 ENCFF574SXS 568 bp overlap
ChIP WA01 ENCSR000ATS.SUZ12.WA01 348 bp overlap
ChIP WA01 ENCSR000EUQ.SUZ12.WA01 338 bp overlap
TBX2 1 dataset
ChIP SK-N-BE2-C GSE94822.TBX2.SK-N-BE2-C 169 bp overlap
TCF12 1 dataset
ChIP Ishikawa ENCSR000BUV.TCF12.Ishikawa 428 bp overlap
TCF7L2 4 datasets
ChIP HCT-116 ENCSR000EUV.TCF7L2.HCT-116 548 bp overlap
ChIP HCT116 ENCFF038POZ 373 bp overlap
ChIP HEK293 ENCFF513JQN 391 bp overlap
ChIP HEK293 ENCSR000EUY.TCF7L2.HEK293 568 bp overlap
TEAD4 1 dataset
ChIP Ishikawa ENCSR000BSW.TEAD4.Ishikawa 178 bp overlap
TFAP2C 2 datasets
Motif DE_12h DE_12h-TFAP2C_MA0814.3 9 bp overlap
ChIP UCLA1-hESCs_TFAP2C--_2d_TFAP2C_Induc GSE101074.TFAP2C.UCLA1-hESCs_TFAP2C--_2d_TFAP2C_Induc 568 bp overlap
THAP1 1 dataset
Motif DE_12h DE_12h-THAP1_MA0597.3 8 bp overlap
TRIM28 1 dataset
ChIP HCT-116 GSE72622.TRIM28.HCT-116 195 bp overlap
ZBTB6 1 dataset
Motif DE_12h DE_12h-ZBTB6_MA1581.2 9 bp overlap
ZBTB7A 1 dataset
ChIP Ishikawa ENCSR000BSZ.ZBTB7A.Ishikawa 430 bp overlap
ZEB1 1 dataset
ChIP GM12878 ENCSR000BND.ZEB1.GM12878 148 bp overlap
ZKSCAN3 1 dataset
Motif DE_12h DE_12h-ZKSCAN3_MA1973.2 14 bp overlap
ZKSCAN5 1 dataset
Motif DE_12h DE_12h-ZKSCAN5_MA1652.2 9 bp overlap
ZMYM3 3 datasets
ChIP K-562 ENCSR102KIN.ZMYM3.K-562 120 bp overlap
ChIP K-562_Ab_JH39-2-2F10 GSE97661.ZMYM3.K-562_Ab_JH39-2-2F10 70 bp overlap
ChIP K562 ENCFF361LXT 134 bp overlap
ZNF148 1 dataset
Motif DE_12h DE_12h-ZNF148_MA1653.2 10 bp overlap
ZNF331 1 dataset
Motif DE_12h DE_12h-ZNF331_MA1726.2 10 bp overlap
ZNF768 1 dataset
ChIP HepG2 ENCFF388QCK 331 bp overlap
Zfp335 1 dataset
Motif DE_12h DE_12h-Zfp335_MA2002.2 7 bp overlap
Huangfu Lab · Publications · Resources · Contact