Variant report

Variant	rs9812617
Chromosome Location	chr3:151023945-151023946
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:151021234..151025100-chr3:151041293..151045950,7	MCF-7	breast:
2	chr3:151017110..151019943-chr3:151020802..151024030,3	MCF-7	breast:
3	chr3:151011307..151016157-chr3:151019117..151025599,7	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10513393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13321176	0.85[EUR][1000 genomes]
rs1388625	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17204437	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17282940	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17282947	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17304673	0.90[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs28386791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28734805	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28810515	0.84[EUR][1000 genomes]
rs28831788	0.84[EUR][1000 genomes]
rs55751359	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6780660	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs6792089	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs73157938	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs73157954	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73157974	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73157991	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9814936	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9817216	0.87[EUR][1000 genomes]
rs9819885	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9821749	0.87[EUR][1000 genomes]
rs9821937	0.86[EUR][1000 genomes]
rs9831242	0.84[EUR][1000 genomes]
rs9834154	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9838990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9840232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9841430	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9848789	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9853676	0.85[EUR][1000 genomes]
rs9854017	0.87[EUR][1000 genomes]
rs9856118	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9859854	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9867524	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9868643	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9871229	0.89[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9872645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9875587	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9876268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9876933	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9880395	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9881116	0.84[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:47 , 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	chr3:151021600-151024600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr3:151021600-151025800	Enhancers	Placenta	Placenta
4	chr3:151021600-151026600	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:151021800-151024000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:151021800-151024200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:151021800-151024600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:151021800-151024800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:151022000-151024800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:151022000-151025200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:151022200-151024800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:151022400-151024000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr3:151022400-151025200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr3:151022400-151025600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr3:151022400-151025800	Enhancers	H1 Cell Line	embryonic stem cell
16	chr3:151022400-151026000	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr3:151022400-151026200	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr3:151022400-151026400	Enhancers	NHLF	lung
19	chr3:151022600-151024200	Enhancers	HSMM	muscle
20	chr3:151022600-151024400	Flanking Active TSS	Hela-S3	cervix
21	chr3:151022600-151024800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
22	chr3:151022600-151025400	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr3:151022600-151026400	Enhancers	NHDF-Ad	bronchial
24	chr3:151022600-151026800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:151022800-151024000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
26	chr3:151022800-151024000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr3:151022800-151024000	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr3:151023000-151024000	Enhancers	Primary T helper cells PMA-I stimulated	--
29	chr3:151023000-151025400	Weak transcription	Esophagus	oesophagus
30	chr3:151023200-151024000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
31	chr3:151023200-151024600	Enhancers	Brain Anterior Caudate	brain
32	chr3:151023200-151034600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:151023400-151024400	Flanking Active TSS	HMEC	breast
34	chr3:151023400-151024600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:151023400-151024600	Enhancers	A549	lung
36	chr3:151023400-151025200	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr3:151023400-151027800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr3:151023600-151024600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr3:151023600-151024600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr3:151023600-151024800	Transcr. at gene 5' and 3'	NHEK	skin
41	chr3:151023600-151025000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr3:151023600-151027000	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr3:151023800-151024400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:151023800-151024600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr3:151023800-151024600	Enhancers	Osteobl	bone
46	chr3:151023800-151025000	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr3:151023800-151026000	Enhancers	NH-A	brain

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