Variant report

Variant	rs73006546
Chromosome Location	chr3:151037427-151037428
allele	A/T
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	FOSL2	chr3:151037281-151037870	SK-N-SH	brain:	n/a	n/a
4	PBX3	chr3:151037339-151037725	SK-N-SH	brain:	n/a	n/a
5	GATA3	chr3:151037177-151037930	SK-N-SH	brain:	n/a	chr3:151037890-151037901
6	TCF12	chr3:151037204-151037880	SK-N-SH	brain:	n/a	n/a
7	STAT3	chr3:151036785-151038372	MCF10A-Er-Src	breast:	n/a	chr3:151037531-151037540 chr3:151037886-151037894 chr3:151037650-151037658
8	EP300	chr3:151037199-151037874	SK-N-SH	brain:	n/a	n/a
9	JUND	chr3:151037203-151038202	SK-N-SH	brain:	n/a	n/a
10	JUND	chr3:151037342-151037749	SK-N-SH	brain:	n/a	n/a
11	FOS	chr3:151036733-151038284	MCF10A-Er-Src	breast:	n/a	chr3:151037129-151037138
12	STAT3	chr3:151037365-151038281	MCF10A-Er-Src	breast:	n/a	chr3:151037531-151037540 chr3:151037886-151037894 chr3:151037650-151037658
13	FOSL2	chr3:151037375-151037724	SK-N-SH	brain:	n/a	n/a
14	FOS	chr3:151037362-151038282	MCF10A-Er-Src	breast:	n/a	n/a
15	STAT1	chr3:151037203-151038653	Hela-S3	cervix:	n/a	chr3:151037531-151037540 chr3:151037886-151037894 chr3:151037650-151037658
16	JUND	chr3:151037233-151037820	SK-N-SH	brain:	n/a	n/a
17	GATA3	chr3:151037313-151037907	SK-N-SH	brain:	n/a	chr3:151037890-151037901
18	POLR2A	chr3:151037385-151037667	SK-N-SH	brain:	n/a	n/a
19	POLR2A	chr3:151036673-151038278	MCF10A-Er-Src	breast:	n/a	n/a
20	STAT3	chr3:151036633-151038341	MCF10A-Er-Src	breast:	n/a	chr3:151037531-151037540 chr3:151037886-151037894 chr3:151037650-151037658
21	TEAD4	chr3:151037358-151037791	SK-N-SH	brain:	n/a	n/a
22	EP300	chr3:151037413-151037647	SK-N-SH_RA	brain:	n/a	n/a
23	STAT3	chr3:151037400-151038252	MCF10A-Er-Src	breast:	n/a	chr3:151037531-151037540 chr3:151037886-151037894 chr3:151037650-151037658
24	PBX3	chr3:151037360-151037884	SK-N-SH	brain:	n/a	n/a
25	TCF12	chr3:151037195-151037952	SK-N-SH	brain:	n/a	n/a
26	FOS	chr3:151036691-151038289	MCF10A-Er-Src	breast:	n/a	chr3:151037129-151037138

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:151037228..151038869-chr3:151040809..151042718,2	MCF-7	breast:

Variant related genes	Relation type
GPR87	TF binding region

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs16846673	0.88[AFR][1000 genomes]
rs16863318	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16863329	0.84[AFR][1000 genomes]
rs16863330	0.82[AFR][1000 genomes]
rs16863331	0.86[AFR][1000 genomes]
rs56155270	1.00[EUR][1000 genomes]
rs56255408	0.86[AFR][1000 genomes]
rs60196145	0.88[AFR][1000 genomes]
rs6769724	1.00[EUR][1000 genomes]
rs73006514	0.88[AFR][1000 genomes]
rs73006580	0.84[AFR][1000 genomes]
rs73006595	0.88[AFR][1000 genomes]
rs73008505	0.83[AFR][1000 genomes]
rs73008510	0.81[AFR][1000 genomes]
rs73023031	1.00[AMR][1000 genomes]
rs73869016	0.88[AFR][1000 genomes]
rs7642603	1.00[EUR][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:33 , 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	chr3:151034800-151037800	Weak transcription	NH-A	brain
9	chr3:151034800-151038200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:151035000-151039800	Weak transcription	Placenta	Placenta
11	chr3:151035200-151039600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:151035400-151039000	Enhancers	NHLF	lung
13	chr3:151035800-151037800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:151035800-151038400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:151035800-151038800	Enhancers	Muscle Satellite Cultured Cells	--
16	chr3:151036000-151038600	Enhancers	Osteobl	bone
17	chr3:151036000-151044600	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr3:151036200-151039000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr3:151036200-151043000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr3:151036600-151045200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:151036800-151037600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:151036800-151037600	Active TSS	HMEC	breast
23	chr3:151036800-151037800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:151036800-151037800	Active TSS	NHEK	skin
25	chr3:151037000-151037800	Weak transcription	Primary B cells from cord blood	blood
26	chr3:151037000-151038200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:151037000-151038600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr3:151037200-151037600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:151037200-151037600	Enhancers	Monocytes-CD14+_RO01746	blood
30	chr3:151037200-151044000	Enhancers	Primary neutrophils fromperipheralblood	blood
31	chr3:151037400-151038200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr3:151037400-151038800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr3:151037400-151039000	Enhancers	Breast Myoepithelial Primary Cells	Breast

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