chr3 : 9,715,200 9,715,410
210 bp 73 TFs 1 linked gene
This 210 bp open chromatin element is linked to CPNE9 and is bound by 73 transcription factors.
Linked Genes
1 gene
Gene Expression Dist. to TSS Distance Link type
CPNE9 at TSS At TSS 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.
chr3:9,710,200 – 9,720,410
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
73 transcription factors
Source
Cell type
AR 1 dataset
ChIP prostate_cancer-associated-fibroblasts GSE90772.AR.prostate_cancer-associated-fibroblasts 176 bp overlap
ARID1A 1 dataset
ChIP MCF-7_4-hydroxytamoxifen GSE123284.ARID1A.MCF-7_4-hydroxytamoxifen 210 bp overlap
ASCL1 1 dataset
ChIP SCLC_ASCLP_NE GSE61197.ASCL1.SCLC_ASCLP_NE 120 bp overlap
BRD2 5 datasets
ChIP MDA-MB-231_BAZ2AsiRNA GSE116879.BRD2.MDA-MB-231_BAZ2AsiRNA 88 bp overlap
ChIP MDA-MB-231_NTsiRNA GSE116879.BRD2.MDA-MB-231_NTsiRNA 90 bp overlap
ChIP SK-MEL-147 GSE94488.BRD2.SK-MEL-147 210 bp overlap
ChIP THP-1_iBET-BD1 GSE138084.BRD2.THP-1_iBET-BD1 197 bp overlap
ChIP THP-1_iBET-BD2 GSE138084.BRD2.THP-1_iBET-BD2 210 bp overlap
BRD3 2 datasets
ChIP MV4-11_DMSO GSE120715.BRD3.MV4-11_DMSO 193 bp overlap
ChIP MV4-11_IBET151_50nM GSE120715.BRD3.MV4-11_IBET151_50nM 111 bp overlap
BRD4 3 datasets
ChIP MV4-11_DMSO GSE120715.BRD4.MV4-11_DMSO 210 bp overlap
ChIP THP-1_DMSO GSE138084.BRD4.THP-1_DMSO 64 bp overlap
ChIP THP-1_DMSO-PMA GSE138084.BRD4.THP-1_DMSO-PMA 181 bp overlap
CDKN1B 1 dataset
ChIP MDA-MB-231_p27CK-DD GSE112444.CDKN1B.MDA-MB-231_p27CK-DD 210 bp overlap
CREBBP 1 dataset
ChIP MCF-7 ERP000901.CREBBP.MCF-7 178 bp overlap
CTBP1 3 datasets
ChIP K-562 ENCSR201NQZ.CTBP1.K-562 76 bp overlap
ChIP MCF-7 ENCFF969VBY 210 bp overlap
ChIP MCF-7 ENCSR636EYA.CTBP1.MCF-7 163 bp overlap
CTCF 3 datasets
ChIP GSC23 GSE139416.CTCF.GSC23 210 bp overlap
ChIP HCT-116 GSE131606.CTCF.HCT-116 78 bp overlap
ChIP K-562 ENCSR000AKO.CTCF.K-562 74 bp overlap
E2F1 1 dataset
ChIP LNCaP_shRB GSE94958.E2F1.LNCaP_shRB 201 bp overlap
EGR1 1 dataset
ChIP K562 ENCFF006PJY 210 bp overlap
ESR1 41 datasets
ChIP Ishikawa_ETV4-KO2_Mili GSE129803.ESR1.Ishikawa_ETV4-KO2_Mili 144 bp overlap
ChIP Ishikawa_siETV4-72h GSE129803.ESR1.Ishikawa_siETV4-72h 210 bp overlap
ChIP Ishikawa_siNTC-72h GSE129803.ESR1.Ishikawa_siNTC-72h 197 bp overlap
ChIP MCF-7_ARID1A-KO_4-OHT GSE123284.ESR1.MCF-7_ARID1A-KO_4-OHT 129 bp overlap
ChIP MCF-7_ARID1A-KO_4-OHT_clone14 GSE123284.ESR1.MCF-7_ARID1A-KO_4-OHT_clone14 152 bp overlap
ChIP MCF-7_ARID1A-KO_clone14 GSE123284.ESR1.MCF-7_ARID1A-KO_clone14 112 bp overlap
ChIP MCF-7_DHT GSE99626.ESR1.MCF-7_DHT 165 bp overlap
ChIP MCF-7_E2 ERP000209.ESR1.MCF-7_E2 119 bp overlap
ChIP MCF-7_E2-10min-ERalpha GSE94023.ESR1.MCF-7_E2-10min-ERalpha 175 bp overlap
ChIP MCF-7_E2-1280-min-ERalpha GSE94023.ESR1.MCF-7_E2-1280-min-ERalpha 180 bp overlap
ChIP MCF-7_E2-160min-ERalpha GSE94023.ESR1.MCF-7_E2-160min-ERalpha 52 bp overlap
ChIP MCF-7_E2-20min-ERalpha GSE94023.ESR1.MCF-7_E2-20min-ERalpha 137 bp overlap
ChIP MCF-7_E2-320min-ERalpha GSE94023.ESR1.MCF-7_E2-320min-ERalpha 92 bp overlap
ChIP MCF-7_E2-40min-ERalpha GSE94023.ESR1.MCF-7_E2-40min-ERalpha 133 bp overlap
ChIP MCF-7_E2-5min-ERalpha GSE94023.ESR1.MCF-7_E2-5min-ERalpha 146 bp overlap
ChIP MCF-7_SIGATA_E2 GSE40129.ESR1.MCF-7_SIGATA_E2 104 bp overlap
ChIP MCF-7_Veh GSE67295.ESR1.MCF-7_Veh 159 bp overlap
ChIP MCF-7_estradiol-DHT_4h GSE99626.ESR1.MCF-7_estradiol-DHT_4h 176 bp overlap
ChIP MCF-7_estradiol-Dex_4h GSE99626.ESR1.MCF-7_estradiol-Dex_4h 161 bp overlap
ChIP MCF-7_estradiol-progesterone_4h GSE99626.ESR1.MCF-7_estradiol-progesterone_4h 181 bp overlap
ChIP MCF-7_estradiol_4h GSE99626.ESR1.MCF-7_estradiol_4h 123 bp overlap
ChIP MCF-7_jc5849 GSE126004.ESR1.MCF-7_jc5849 201 bp overlap
ChIP MCF-7_jc5850 GSE126004.ESR1.MCF-7_jc5850 182 bp overlap
ChIP MCF-7_jc5852 GSE126004.ESR1.MCF-7_jc5852 210 bp overlap
ChIP MCF-7_jc5853 GSE126004.ESR1.MCF-7_jc5853 210 bp overlap
ChIP MCF-7_jc5854 GSE126004.ESR1.MCF-7_jc5854 210 bp overlap
ChIP MCF-7_jc5855 GSE126004.ESR1.MCF-7_jc5855 210 bp overlap
ChIP MCF-7_jc5856 GSE126004.ESR1.MCF-7_jc5856 210 bp overlap
ChIP MCF-7_parental GSE123284.ESR1.MCF-7_parental 136 bp overlap
ChIP MCF-7_parental_4-hydroxytamoxifen GSE123284.ESR1.MCF-7_parental_4-hydroxytamoxifen 159 bp overlap
ChIP MDA-MB-134-VI_ESTROGEN GSE51022.ESR1.MDA-MB-134-VI_ESTROGEN 210 bp overlap
ChIP T-47D ENCSR000BJS.ESR1.T-47D 72 bp overlap
ChIP T-47D_E2 GSE125594.ESR1.T-47D_E2 72 bp overlap
ChIP T-47D_JC4731 GSE126004.ESR1.T-47D_JC4731 162 bp overlap
ChIP T-47D_JC4732 GSE126004.ESR1.T-47D_JC4732 141 bp overlap
ChIP T-47D_Y537S GSE148277.ESR1.T-47D_Y537S 210 bp overlap
ChIP T-47D_Y537S_E2 GSE148277.ESR1.T-47D_Y537S_E2 205 bp overlap
ChIP T-47D_siCont-IL6 GSE126004.ESR1.T-47D_siCont-IL6 162 bp overlap
ChIP T-47D_siCont-Veh GSE126004.ESR1.T-47D_siCont-Veh 119 bp overlap
ChIP T-47D_siFOXA1-IL6 GSE126004.ESR1.T-47D_siFOXA1-IL6 112 bp overlap
ChIP T-47D_siFOXA1-Veh GSE126004.ESR1.T-47D_siFOXA1-Veh 134 bp overlap
ESR1_Y537N 3 datasets
ChIP MCF-7_dox GSE94493.ESR1_Y537N.MCF-7_dox 141 bp overlap
ChIP MCF-7_dox_E2 GSE94493.ESR1_Y537N.MCF-7_dox_E2 99 bp overlap
ChIP MCF-7_talen GSE94493.ESR1_Y537N.MCF-7_talen 77 bp overlap
ESR1_Y537S 2 datasets
ChIP MCF-7_E2 GSE94493.ESR1_Y537S.MCF-7_E2 209 bp overlap
ChIP MCF-7_dox GSE94493.ESR1_Y537S.MCF-7_dox 112 bp overlap
FOXA1 1 dataset
ChIP primary-breast-cancer_B2_DSG GSE114737.FOXA1.primary-breast-cancer_B2_DSG 80 bp overlap
FOXK1 1 dataset
ChIP K562 ENCFF801IBC 210 bp overlap
GRHL1 1 dataset
Motif ES_0h ES_0h-GRHL1_MA0647.2 10 bp overlap
GRHL2 5 datasets
Motif ES_0h ES_0h-GRHL2_MA1105.3 8 bp overlap
ChIP MCF-7 GSE109820.GRHL2.MCF-7 168 bp overlap
ChIP MCF-7-WS8_VEH GSE113092.GRHL2.MCF-7-WS8_VEH 210 bp overlap
ChIP MCF-7_E2_45min GSE109820.GRHL2.MCF-7_E2_45min 210 bp overlap
ChIP T-47D GSE99680.GRHL2.T-47D 210 bp overlap
GTF2E2 2 datasets
ChIP K562 ENCFF741URT 210 bp overlap
ChIP K562 ENCFF741URT 52 bp overlap
HNRNPLL 1 dataset
ChIP K562 ENCFF541ZGX 210 bp overlap
KAT7 1 dataset
ChIP OCI-AML-3 GSE133516.KAT7.OCI-AML-3 157 bp overlap
KDM4C 1 dataset
ChIP KYSE-150 GSE53938.KDM4C.KYSE-150 186 bp overlap
KLF5 1 dataset
ChIP ESO-26 GSE132680.KLF5.ESO-26 210 bp overlap
KLF9 5 datasets
ChIP GBM1A GSE62211.KLF9.GBM1A 107 bp overlap
ChIP HEK293 ENCFF588INF 210 bp overlap
ChIP HEK293 ENCSR076EZB.KLF9.HEK293 210 bp overlap
ChIP MCF-7 ENCFF618FCM 210 bp overlap
ChIP MCF-7 ENCSR125ZYC.KLF9.MCF-7 199 bp overlap
KMT2A 1 dataset
ChIP THP-1 GSE79899.KMT2A.THP-1 87 bp overlap
MAX 2 datasets
ChIP Ishikawa ENCFF064TDQ 210 bp overlap
ChIP MCF-7 ENCSR000BUL.MAX.MCF-7 129 bp overlap
MED1 1 dataset
ChIP HCT-116_shLuc_thaps GSE121798.MED1.HCT-116_shLuc_thaps 74 bp overlap
MED26 2 datasets
ChIP HCT-116_aux GSE121355.MED26.HCT-116_aux 128 bp overlap
ChIP U2OS_SHCTR GSE73742.MED26.U2OS_SHCTR 109 bp overlap
MYC 2 datasets
ChIP MCF-7 ENCFF542NWJ 210 bp overlap
ChIP MCF-7 ENCSR000DMQ.MYC.MCF-7 168 bp overlap
MYOD1 1 dataset
ChIP RH4 GSE83726.MYOD1.RH4 129 bp overlap
NCOA2 1 dataset
ChIP MCF-7_E2 ERP000901.NCOA2.MCF-7_E2 97 bp overlap
NELFCD 1 dataset
ChIP DLD-1_NELFCD-AID GSE144786.NELFCD.DLD-1_NELFCD-AID 210 bp overlap
NELFE 2 datasets
ChIP K-562_HS GSE112379.NELFE.K-562_HS 109 bp overlap
ChIP K-562_NHS GSE112379.NELFE.K-562_NHS 154 bp overlap
NRF1 1 dataset
ChIP T-47D_HAEGIN2 GSE59935.NRF1.T-47D_HAEGIN2 182 bp overlap
NRIP1 2 datasets
ChIP MCF-7 ERP005838.NRIP1.MCF-7 118 bp overlap
ChIP MCF-7_E2 ERP005838.NRIP1.MCF-7_E2 113 bp overlap
PLAG1 1 dataset
ChIP K-562 GSE111469.PLAG1.K-562 172 bp overlap
POLR2A 2 datasets
ChIP HCT116 ENCFF508RDJ 210 bp overlap
ChIP HeLa-S3 ENCFF224LWS 210 bp overlap
RAD21 1 dataset
ChIP MCF-7 ERP000209.RAD21.MCF-7 137 bp overlap
SMARCB1 3 datasets
ChIP MCF-7_4-hydroxytamoxifen GSE123284.SMARCB1.MCF-7_4-hydroxytamoxifen 135 bp overlap
ChIP MCF-7_Fulvestrant GSE123284.SMARCB1.MCF-7_Fulvestrant 134 bp overlap
ChIP MCF-7_estrogen GSE123284.SMARCB1.MCF-7_estrogen 184 bp overlap
SNAI2 1 dataset
ChIP keratinocyte_LacZ GSE55421.SNAI2.keratinocyte_LacZ 210 bp overlap
SOX2 1 dataset
ChIP hiPSC GSE56567.SOX2.hiPSC 180 bp overlap
SP2 1 dataset
ChIP HEK293 ENCSR807LQP.SP2.HEK293 166 bp overlap
SP4 1 dataset
ChIP HEK293 GSE76494.SP4.HEK293 142 bp overlap
SREBF1 1 dataset
Motif ES_0h ES_0h-SREBF1_MA0595.1 10 bp overlap
SREBF2 1 dataset
Motif ES_0h ES_0h-SREBF2_MA0596.1 10 bp overlap
STAG1 1 dataset
ChIP MCF-7_E2_SHCTCF ERP000209.STAG1.MCF-7_E2_SHCTCF 139 bp overlap
STAT3 8 datasets
ChIP MCF-7_jc5834 GSE126004.STAT3.MCF-7_jc5834 198 bp overlap
ChIP MCF-7_jc5836 GSE126004.STAT3.MCF-7_jc5836 210 bp overlap
ChIP MCF-7_jc5843 GSE126004.STAT3.MCF-7_jc5843 147 bp overlap
ChIP MCF-7_jc5844 GSE126004.STAT3.MCF-7_jc5844 135 bp overlap
ChIP T-47D_JC4757 GSE126004.STAT3.T-47D_JC4757 204 bp overlap
ChIP T-47D_JC5054 GSE126004.STAT3.T-47D_JC5054 210 bp overlap
ChIP T-47D_JC5056 GSE126004.STAT3.T-47D_JC5056 210 bp overlap
ChIP T-47D_JC5062 GSE126004.STAT3.T-47D_JC5062 174 bp overlap
SUPT5H 2 datasets
ChIP DLD-1_NELFCD-AID GSE144786.SUPT5H.DLD-1_NELFCD-AID 150 bp overlap
ChIP HCT-116_pThr806 GSE138548.SUPT5H.HCT-116_pThr806 129 bp overlap
TAF1 1 dataset
ChIP WA01 ENCSR000BHO.TAF1.WA01 112 bp overlap
TBP 2 datasets
ChIP H1 ENCFF859IIO 210 bp overlap
ChIP WA01 ENCSR000ECB.TBP.WA01 172 bp overlap
TEAD4 7 datasets
ChIP MCF-7_BLRP_WT_E2 GSE125594.TEAD4.MCF-7_BLRP_WT_E2 166 bp overlap
ChIP MCF-7_BLRP_WT_Veh GSE125594.TEAD4.MCF-7_BLRP_WT_Veh 145 bp overlap
ChIP MCF-7_E2 GSE125594.TEAD4.MCF-7_E2 210 bp overlap
ChIP MCF-7_Veh GSE125594.TEAD4.MCF-7_Veh 145 bp overlap
ChIP SNU-216 GSE44416.TEAD4.SNU-216 162 bp overlap
ChIP T-47D_E2 GSE125594.TEAD4.T-47D_E2 177 bp overlap
ChIP T-47D_Veh GSE125594.TEAD4.T-47D_Veh 178 bp overlap
TFCP2 1 dataset
Motif ES_0h ES_0h-TFCP2_MA1968.2 9 bp overlap
USF1 1 dataset
ChIP K562 ENCFF202SFC 210 bp overlap
ZFX 1 dataset
ChIP K562 ENCFF169LZT 210 bp overlap
ZNF143 3 datasets
ChIP FLP76_T4 GSE39263.ZNF143.FLP76_T4 79 bp overlap
ChIP MCF-7 GSE76454.ZNF143.MCF-7 210 bp overlap
ChIP MCF-7_E2 GSE76454.ZNF143.MCF-7_E2 210 bp overlap
ZNF217 3 datasets
ChIP MCF-7 ENCFF379OSU 210 bp overlap
ChIP MCF-7 ENCFF379OSU 99 bp overlap
ChIP MCF-7 ENCSR465XQW.ZNF217.MCF-7 137 bp overlap
ZNF263 5 datasets
ChIP HEK293 ENCFF336CWQ 121 bp overlap
ChIP Hep-G2 ENCSR313MMD.ZNF263.Hep-G2 128 bp overlap
ChIP HepG2 ENCFF626SSV 135 bp overlap
ChIP K-562 ENCSR000EWN.ZNF263.K-562 200 bp overlap
ChIP K562 ENCFF640RNA 105 bp overlap
ZNF316 1 dataset
ChIP K562 ENCFF838QCD 110 bp overlap
ZNF335 1 dataset
ChIP HEK293 ENCFF784SLD 50 bp overlap
ZNF395 2 datasets
ChIP K562 ENCFF464EIT 210 bp overlap
ChIP K562 ENCFF464EIT 102 bp overlap
ZNF740 1 dataset
ChIP K562 ENCFF913GVQ 210 bp overlap
ZSCAN21 2 datasets
ChIP HEK293 ENCFF582WUP 209 bp overlap
ChIP HEK293 ENCSR253CKN.ZSCAN21.HEK293 147 bp overlap