Variant report

Variant	rs1873620
Chromosome Location	chr3:151036392-151036393
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	chr3:151035880-151036410	MCF10A-Er-Src	breast:	n/a	chr3:151036346-151036358
2	FOSL2	chr3:151036064-151036569	SK-N-SH	brain:	n/a	chr3:151036346-151036358
3	PBX3	chr3:151036077-151036530	SK-N-SH	brain:	n/a	n/a
4	JUND	chr3:151035938-151036581	SK-N-SH	brain:	n/a	chr3:151036346-151036358
5	FOS	chr3:151036122-151036416	MCF10A-Er-Src	breast:	n/a	chr3:151036346-151036358
6	JUND	chr3:151036074-151036517	SK-N-SH	brain:	n/a	chr3:151036346-151036358
7	POLR2A	chr3:151036083-151036406	SK-N-SH	brain:	n/a	n/a
8	CEBPB	chr3:151036182-151036428	Hela-S3	cervix:	n/a	n/a
9	FOS	chr3:151036129-151036402	MCF10A-Er-Src	breast:	n/a	chr3:151036346-151036358
10	JUND	chr3:151035944-151036610	SK-N-SH	brain:	n/a	chr3:151036346-151036358
11	GATA3	chr3:151035915-151036526	SK-N-SH	brain:	n/a	n/a
12	PBX3	chr3:151036031-151036561	SK-N-SH	brain:	n/a	n/a
13	TCF12	chr3:151035956-151036595	SK-N-SH	brain:	n/a	n/a
14	EP300	chr3:151036068-151036452	SK-N-SH_RA	brain:	n/a	n/a
15	JUND	chr3:151036099-151036427	Hela-S3	cervix:	n/a	chr3:151036346-151036358
16	EP300	chr3:151035939-151036435	SK-N-SH	brain:	n/a	n/a
17	TCF12	chr3:151035919-151036513	SK-N-SH	brain:	n/a	n/a
18	EP300	chr3:151036109-151036475	SK-N-SH_RA	brain:	n/a	n/a
19	GATA3	chr3:151035898-151036662	SK-N-SH	brain:	n/a	n/a
20	FOS	chr3:151036122-151036402	MCF10A-Er-Src	breast:	n/a	chr3:151036346-151036358
21	RXRA	chr3:151035925-151036611	SK-N-SH	brain:	n/a	chr3:151036226-151036242

Variant related genes	Relation type
GPR87	TF binding region

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1016629	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10935846	1.00[ASN][1000 genomes]
rs1873623	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28683077	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35291743	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35723440	1.00[ASN][1000 genomes]
rs58321514	1.00[ASN][1000 genomes]
rs60356898	1.00[ASN][1000 genomes]
rs61736003	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796950	1.00[ASN][1000 genomes]
rs73021144	1.00[ASN][1000 genomes]
rs937121	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs937122	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs937123	0.83[AMR][1000 genomes];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:40 , 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	chr3:151032800-151036800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:151033000-151036600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:151033000-151038000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:151033400-151036400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:151034000-151037600	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr3:151034600-151039000	Enhancers	NHDF-Ad	bronchial
11	chr3:151034800-151036400	Enhancers	NHEK	skin
12	chr3:151034800-151036600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:151034800-151036600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:151034800-151036600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:151034800-151037200	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr3:151034800-151037800	Weak transcription	NH-A	brain
17	chr3:151034800-151038200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:151035000-151036400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:151035000-151039800	Weak transcription	Placenta	Placenta
20	chr3:151035200-151036600	Enhancers	HMEC	breast
21	chr3:151035200-151039600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:151035400-151036400	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr3:151035400-151039000	Enhancers	NHLF	lung
24	chr3:151035600-151037000	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr3:151035800-151037000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:151035800-151037000	Enhancers	A549	lung
27	chr3:151035800-151037800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:151035800-151038400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr3:151035800-151038800	Enhancers	Muscle Satellite Cultured Cells	--
30	chr3:151036000-151036400	Enhancers	Placenta Amnion	Placenta Amnion
31	chr3:151036000-151036800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr3:151036000-151037000	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr3:151036000-151037000	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr3:151036000-151037000	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr3:151036000-151038600	Enhancers	Osteobl	bone
36	chr3:151036000-151044600	Enhancers	Primary monocytes fromperipheralblood	blood
37	chr3:151036200-151036800	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr3:151036200-151037200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
39	chr3:151036200-151039000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:151036200-151043000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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