Variant report

Variant	rs66524723
Chromosome Location	chr3:151037061-151037062
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr3:151036661-151038260	MCF10A-Er-Src	breast:	n/a	chr3:151037129-151037138
2	POLR2A	chr3:151036579-151038362	MCF10A-Er-Src	breast:	n/a	n/a
3	STAT3	chr3:151036785-151038372	MCF10A-Er-Src	breast:	n/a	chr3:151037531-151037540 chr3:151037886-151037894 chr3:151037650-151037658
4	FOS	chr3:151036680-151037158	MCF10A-Er-Src	breast:	n/a	chr3:151037129-151037138
5	FOS	chr3:151036733-151038284	MCF10A-Er-Src	breast:	n/a	chr3:151037129-151037138
6	E2F4	chr3:151036784-151037165	MCF10A-Er-Src	breast:	n/a	n/a
7	STAT3	chr3:151036651-151037090	MCF10A-Er-Src	breast:	n/a	n/a
8	POLR2A	chr3:151036673-151038278	MCF10A-Er-Src	breast:	n/a	n/a
9	STAT3	chr3:151036633-151038341	MCF10A-Er-Src	breast:	n/a	chr3:151037531-151037540 chr3:151037886-151037894 chr3:151037650-151037658
10	STAT3	chr3:151036667-151037154	MCF10A-Er-Src	breast:	n/a	n/a
11	CEBPB	chr3:151036779-151037121	Hela-S3	cervix:	n/a	n/a
12	MYC	chr3:151036634-151037113	MCF10A-Er-Src	breast:	n/a	n/a
13	MYC	chr3:151036626-151037175	MCF10A-Er-Src	breast:	n/a	n/a
14	FOS	chr3:151036691-151038289	MCF10A-Er-Src	breast:	n/a	chr3:151037129-151037138

Variant related genes	Relation type
GPR87	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10513391	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10935831	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10935832	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10935833	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10935835	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11925037	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11926145	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12107539	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12485537	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12486265	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12497019	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12637988	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13079391	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1388617	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16863287	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28527299	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34347156	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34708786	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35144003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35786948	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3773621	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3806636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680307	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4680315	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4680356	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55705054	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56087525	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62282988	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62283022	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66927386	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6784934	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6785930	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6796501	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6801155	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6808091	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7618206	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7648875	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2754555	chr3:150968302-151054302	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151002600-151044000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:151030400-151038400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:151031200-151038200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr3:151032200-151039200	Enhancers	Hela-S3	cervix
5	chr3:151033000-151038000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:151034000-151037600	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:151034600-151039000	Enhancers	NHDF-Ad	bronchial
8	chr3:151034800-151037200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr3:151034800-151037800	Weak transcription	NH-A	brain
10	chr3:151034800-151038200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:151035000-151039800	Weak transcription	Placenta	Placenta
12	chr3:151035200-151039600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:151035400-151039000	Enhancers	NHLF	lung
14	chr3:151035800-151037800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:151035800-151038400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:151035800-151038800	Enhancers	Muscle Satellite Cultured Cells	--
17	chr3:151036000-151038600	Enhancers	Osteobl	bone
18	chr3:151036000-151044600	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr3:151036200-151037200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
20	chr3:151036200-151039000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:151036200-151043000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:151036400-151037200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
23	chr3:151036600-151037200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:151036600-151037200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr3:151036600-151045200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:151036800-151037200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
27	chr3:151036800-151037600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr3:151036800-151037600	Active TSS	HMEC	breast
29	chr3:151036800-151037800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr3:151036800-151037800	Active TSS	NHEK	skin
31	chr3:151037000-151037400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr3:151037000-151037400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr3:151037000-151037400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr3:151037000-151037800	Weak transcription	Primary B cells from cord blood	blood
35	chr3:151037000-151038200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr3:151037000-151038600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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