Variant report

Variant	rs9845467
Chromosome Location	chr3:81614473-81614474
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	chr3:81605753..81607787-chr3:81613884..81616486,2	MCF-7	breast:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11710970	0.81[JPT][hapmap]
rs11917558	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12497231	0.89[ASN][1000 genomes]
rs12631775	0.83[CHB][hapmap]
rs13059815	0.83[CHB][hapmap]
rs13066091	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13071810	0.82[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.94[TSI][hapmap];0.82[EUR][1000 genomes]
rs13082609	0.82[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];0.90[TSI][hapmap]
rs13082940	0.82[CEU][hapmap];0.82[CHD][hapmap];0.84[GIH][hapmap];0.91[TSI][hapmap]
rs13086984	0.83[CHB][hapmap]
rs13094809	0.82[CEU][hapmap];0.82[CHB][hapmap]
rs1461611	0.88[ASN][1000 genomes]
rs17019088	0.82[CEU][hapmap];0.82[CHB][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];0.93[TSI][hapmap];0.82[EUR][1000 genomes]
rs1907880	0.82[CEU][hapmap]
rs2121949	0.82[CEU][hapmap];0.82[CHB][hapmap]
rs2307058	0.83[CHB][hapmap];0.86[CHD][hapmap]
rs2372905	0.84[ASN][1000 genomes]
rs2372906	0.84[ASN][1000 genomes]
rs34674953	0.82[EUR][1000 genomes]
rs35259664	0.82[EUR][1000 genomes]
rs35395999	0.82[EUR][1000 genomes]
rs35628094	0.81[EUR][1000 genomes]
rs35754586	0.82[EUR][1000 genomes]
rs35942842	0.80[EUR][1000 genomes]
rs3772915	0.82[EUR][1000 genomes]
rs3849570	0.82[MEX][hapmap]
rs4856346	0.83[ASN][1000 genomes]
rs4856348	0.83[ASN][1000 genomes]
rs4856349	0.83[ASN][1000 genomes]
rs4856350	0.83[ASN][1000 genomes]
rs57623955	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59609265	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs62265411	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6764261	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769230	0.81[CHD][hapmap]
rs6776737	0.89[ASN][1000 genomes]
rs6800295	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6805105	0.83[CHB][hapmap]
rs7610703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7618973	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7622741	0.83[CHD][hapmap]
rs7631349	0.85[CHD][hapmap]
rs7639135	0.82[EUR][1000 genomes]
rs7649028	0.83[CHD][hapmap]
rs898763	0.89[ASN][1000 genomes]
rs9866374	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9868037	0.82[ASN][1000 genomes]
rs9874184	0.83[ASN][1000 genomes]
rs9874464	0.84[ASN][1000 genomes]
rs9877327	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934018	chr3:81413060-81655338	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv933756	chr3:81413060-81754738	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1003217	chr3:81435044-81752521	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1012133	chr3:81499082-81817471	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv933259	chr3:81523854-81730617	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv949545	chr3:81523898-81893929	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv999587	chr3:81534364-81707800	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv536603	chr3:81534364-81707800	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:81581600-81628200	Weak transcription	Stomach Smooth Muscle	stomach
2	chr3:81583600-81625600	Weak transcription	HUVEC	blood vessel
3	chr3:81584200-81636600	Weak transcription	Placenta	Placenta
4	chr3:81598200-81625600	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr3:81603600-81726400	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:81604200-81641200	Weak transcription	HSMMtube	muscle
7	chr3:81608600-81644000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr3:81609200-81636600	Weak transcription	Pancreas	Pancrea
9	chr3:81609400-81635200	Weak transcription	Duodenum Mucosa	Duodenum
10	chr3:81609600-81614600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:81610800-81624000	Strong transcription	Dnd41	blood
12	chr3:81611600-81628600	Weak transcription	Spleen	Spleen
13	chr3:81611600-81629000	Weak transcription	NHLF	lung
14	chr3:81612000-81630400	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr3:81612400-81616200	Weak transcription	HSMM	muscle
16	chr3:81612800-81626800	Weak transcription	Osteobl	bone
17	chr3:81612800-81631000	Weak transcription	Fetal Kidney	kidney
18	chr3:81613000-81614800	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
19	chr3:81613000-81622800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr3:81613200-81614600	Strong transcription	Primary B cells from cord blood	blood
21	chr3:81613200-81614600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
22	chr3:81613200-81614600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:81613400-81615400	Enhancers	HMEC	breast
24	chr3:81613600-81618600	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr3:81613600-81625800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr3:81613600-81699200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:81613800-81614600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr3:81613800-81614800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr3:81614000-81614800	Enhancers	NHEK	skin
30	chr3:81614000-81616600	Weak transcription	NHDF-Ad	bronchial
31	chr3:81614000-81623000	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr3:81614000-81625600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr3:81614000-81629600	Weak transcription	Psoas Muscle	Psoas
34	chr3:81614000-81638200	Weak transcription	Lung	lung
35	chr3:81614000-81693600	Weak transcription	Aorta	Aorta
36	chr3:81614200-81614800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:81614200-81615600	Weak transcription	Left Ventricle	heart
38	chr3:81614200-81616000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr3:81614200-81619600	Weak transcription	Adipose Nuclei	Adipose
40	chr3:81614200-81625800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr3:81614200-81627000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:81614200-81628800	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr3:81614200-81640400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr3:81614400-81614800	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr3:81614400-81615000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr3:81614400-81622600	Weak transcription	Liver	Liver
47	chr3:81614400-81625600	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr3:81614400-81625800	Weak transcription	Ovary	ovary
49	chr3:81614400-81627000	Weak transcription	HepG2	liver
50	chr3:81614400-81629600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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