Variant report

Variant	rs9855515
Chromosome Location	chr3:17679106-17679107
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	chr3:17677327..17679225-chr3:17680575..17682681,2	K562	blood:
2	chr3:17667671..17669916-chr3:17678475..17680012,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10510477	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10510478	0.94[MEX][hapmap]
rs11128837	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11128838	0.83[MEX][hapmap]
rs11128839	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11128841	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12497320	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs13065637	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13085167	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13085441	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13095571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13097908	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs13320647	0.94[MEX][hapmap]
rs13321297	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17273111	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2033379	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2337387	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4128509	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4243835	0.86[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap]
rs4243836	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4243838	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4435674	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4470554	0.86[GIH][hapmap];0.88[MEX][hapmap]
rs4482690	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4484221	1.00[CHB][hapmap]
rs4513482	1.00[JPT][hapmap]
rs4566567	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs4566568	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4568172	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4602424	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4611850	0.94[MEX][hapmap]
rs4908939	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs4908940	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4908967	0.94[MEX][hapmap]
rs4908987	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4909012	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs5014632	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs6577597	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6577616	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6577619	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6577622	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap]
rs6577643	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6577644	1.00[CHB][hapmap]
rs6768637	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs6772394	1.00[CHB][hapmap]
rs6788763	1.00[CHB][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs6789697	0.82[GIH][hapmap];0.94[MEX][hapmap]
rs6792422	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs6795189	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6807020	0.94[MEX][hapmap]
rs6809062	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6810235	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7427588	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs7627732	0.88[MEX][hapmap]
rs7632240	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7642860	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7644020	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap]
rs7644389	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs7652156	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8179983	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs9310523	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9681232	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9812199	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs9812906	1.00[CHB][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs9821318	0.94[MEX][hapmap]
rs9821955	1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs9823767	0.88[MEX][hapmap]
rs9847461	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9853571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9857910	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9869999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9881850	1.00[CHB][hapmap];0.81[GIH][hapmap]
rs9985472	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999460	chr3:17360261-17720103	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv536510	chr3:17360261-17720103	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1013069	chr3:17560456-17783372	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv1849856	chr3:17646794-17748688	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv1828838	chr3:17646794-17757960	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17650800-17681200	Weak transcription	Aorta	Aorta
2	chr3:17656000-17681200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:17657800-17681200	Weak transcription	Colon Smooth Muscle	Colon
4	chr3:17660400-17679800	Weak transcription	Adipose Nuclei	Adipose
5	chr3:17664800-17688600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:17664800-17689000	Weak transcription	Primary B cells from peripheral blood	blood
7	chr3:17668600-17679400	Weak transcription	GM12878-XiMat	blood
8	chr3:17668600-17679600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr3:17668800-17706200	Weak transcription	Primary B cells from cord blood	blood
10	chr3:17673400-17680400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr3:17673400-17681200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr3:17674000-17690800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr3:17674200-17681000	Weak transcription	HSMMtube	muscle
14	chr3:17674200-17687600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:17674400-17679400	Weak transcription	NHLF	lung
16	chr3:17674400-17680800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:17674600-17679200	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr3:17674600-17679800	Weak transcription	NHEK	skin
19	chr3:17674800-17679200	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr3:17674800-17680000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr3:17675000-17679200	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr3:17677200-17679200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr3:17677200-17679800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:17677200-17680000	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr3:17677200-17681000	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr3:17677400-17679400	Weak transcription	Osteobl	bone
27	chr3:17677400-17679600	Weak transcription	HSMM	muscle
28	chr3:17677400-17681000	Weak transcription	K562	blood
29	chr3:17677400-17681200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr3:17677600-17679200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:17677600-17681000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr3:17677600-17681200	Weak transcription	Left Ventricle	heart
33	chr3:17677600-17681200	Weak transcription	Right Atrium	heart
34	chr3:17677600-17686800	Weak transcription	Small Intestine	intestine
35	chr3:17677800-17679200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:17677800-17679800	Weak transcription	HUVEC	blood vessel
37	chr3:17677800-17680000	Weak transcription	NH-A	brain
38	chr3:17678000-17679200	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr3:17678000-17679200	Weak transcription	NHDF-Ad	bronchial
40	chr3:17678000-17679600	Weak transcription	Hela-S3	cervix
41	chr3:17678000-17679800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr3:17679000-17679400	Enhancers	A549	lung
43	chr3:17679000-17679600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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