Variant report

Variant	rs10936179
Chromosome Location	chr3:159511930-159511931
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159506660..159510516-chr3:159511737..159514255,3	MCF-7	breast:
2	chr3:159504063..159506884-chr3:159510912..159512830,2	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1009058	0.83[CEU][hapmap]
rs1107061	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11715088	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12490735	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12491535	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1497762	0.94[CEU][hapmap];0.94[CHB][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1553081	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675496	0.83[CEU][hapmap]
rs2010748	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2169305	0.94[CHB][hapmap];0.90[ASN][1000 genomes]
rs3851359	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3889309	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3889310	0.94[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4679863	0.94[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4679865	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680521	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680524	0.95[CHB][hapmap];0.90[JPT][hapmap];0.98[ASN][1000 genomes]
rs56107912	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270387	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270397	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6763138	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6771478	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6780187	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7639937	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9878736	0.90[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv4084	chr3:159492488-159513251	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159493600-159516200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:159502000-159522800	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr3:159504000-159518600	Enhancers	Brain Hippocampus Middle	brain
4	chr3:159504200-159518400	Enhancers	Brain Substantia Nigra	brain
5	chr3:159505000-159515000	Enhancers	Brain Angular Gyrus	brain
6	chr3:159505600-159512600	Enhancers	Rectal Smooth Muscle	rectum
7	chr3:159505600-159515600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:159506000-159518200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr3:159506200-159522600	Weak transcription	Fetal Kidney	kidney
10	chr3:159506400-159512400	Weak transcription	Right Atrium	heart
11	chr3:159506400-159512600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:159506400-159513200	Weak transcription	NHLF	lung
13	chr3:159506400-159513800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr3:159506400-159522400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr3:159506600-159514200	Weak transcription	Fetal Heart	heart
16	chr3:159506800-159513000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr3:159507000-159512200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:159507000-159513600	Weak transcription	NH-A	brain
19	chr3:159507400-159512400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:159507400-159512600	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:159508000-159513800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:159508000-159513800	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr3:159508000-159514000	Weak transcription	HMEC	breast
24	chr3:159508600-159520600	Enhancers	Brain Cingulate Gyrus	brain
25	chr3:159509000-159516600	Weak transcription	Liver	Liver
26	chr3:159509200-159515000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr3:159509200-159516600	Weak transcription	HepG2	liver
28	chr3:159509400-159512400	Enhancers	HUVEC	blood vessel
29	chr3:159509400-159512600	Enhancers	Stomach Smooth Muscle	stomach
30	chr3:159509400-159513600	Weak transcription	Lung	lung
31	chr3:159509400-159513800	Enhancers	Colon Smooth Muscle	Colon
32	chr3:159509400-159514000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr3:159509400-159515600	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr3:159509400-159517200	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr3:159509600-159512400	Weak transcription	Adipose Nuclei	Adipose
36	chr3:159509600-159513800	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr3:159509600-159514000	Weak transcription	NHEK	skin
38	chr3:159510200-159512200	Weak transcription	Aorta	Aorta
39	chr3:159510200-159513000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:159510200-159513000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr3:159510200-159513000	Weak transcription	Osteobl	bone
42	chr3:159510200-159513800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr3:159510200-159513800	Weak transcription	HSMM	muscle
44	chr3:159510200-159516200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr3:159510400-159512800	Weak transcription	NHDF-Ad	bronchial
46	chr3:159510800-159513600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr3:159511000-159512800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr3:159511000-159513000	Weak transcription	Right Ventricle	heart
49	chr3:159511000-159514400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
50	chr3:159511200-159512200	Weak transcription	Brain Anterior Caudate	brain

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