Variant report

Variant	rs1118879
Chromosome Location	chr3:46165207-46165208
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46165088..46167964-chr3:46179525..46182500,2	MCF-7	breast:
2	chr3:46162316..46164554-chr3:46164815..46166918,2	K562	blood:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs11130085	0.89[ASN][1000 genomes]
rs11130086	0.90[ASN][1000 genomes]
rs11917890	0.89[ASN][1000 genomes]
rs11929281	0.89[ASN][1000 genomes]
rs12485978	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12496322	0.89[ASN][1000 genomes]
rs12629632	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12637023	0.88[ASN][1000 genomes]
rs13065737	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13073861	0.92[ASN][1000 genomes]
rs13077099	0.89[ASN][1000 genomes]
rs13077923	0.93[ASN][1000 genomes]
rs13078053	0.92[ASN][1000 genomes]
rs13082280	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13434029	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13434336	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1491959	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1546077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1546078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1602579	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1604069	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17078577	0.88[ASN][1000 genomes]
rs1909595	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1909596	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1976366	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1976367	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2131091	0.93[ASN][1000 genomes]
rs2201984	0.89[EUR][1000 genomes]
rs2220678	0.90[ASN][1000 genomes]
rs2373150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2373151	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2373153	0.91[ASN][1000 genomes]
rs2373154	0.87[ASN][1000 genomes]
rs34067839	0.93[ASN][1000 genomes]
rs35359253	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35462017	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35567508	0.92[ASN][1000 genomes]
rs36111470	0.93[ASN][1000 genomes]
rs4314213	0.87[EUR][1000 genomes]
rs4318588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682806	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4682809	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682810	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4683168	0.89[EUR][1000 genomes]
rs4683175	0.88[ASN][1000 genomes]
rs4683178	0.89[ASN][1000 genomes]
rs56307311	0.93[ASN][1000 genomes]
rs59521415	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61079448	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441944	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776028	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6784214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6794103	0.89[ASN][1000 genomes]
rs6794475	0.91[ASN][1000 genomes]
rs6795629	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6800484	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6809381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610518	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631598	0.81[ASN][1000 genomes]
rs9311386	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9311387	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9637425	0.88[ASN][1000 genomes]
rs9824886	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9870445	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9876587	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9990063	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46156800-46168000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:46157200-46166600	Weak transcription	Psoas Muscle	Psoas
3	chr3:46157200-46168600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:46161400-46169400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:46162800-46165400	Weak transcription	NHDF-Ad	bronchial
6	chr3:46162800-46168800	Weak transcription	HMEC	breast
7	chr3:46163200-46166600	Enhancers	NHLF	lung
8	chr3:46163200-46166800	Enhancers	Fetal Stomach	stomach
9	chr3:46164000-46171000	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr3:46164400-46166400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:46164400-46166800	Enhancers	Placenta	Placenta
12	chr3:46164800-46167000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:46165000-46165400	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr3:46165000-46166000	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr3:46165000-46166800	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr3:46165000-46167000	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr3:46165000-46167000	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr3:46165000-46167000	Enhancers	Adipose Nuclei	Adipose
19	chr3:46165200-46165400	Flanking Active TSS	Fetal Lung	lung
20	chr3:46165200-46165600	Enhancers	Colon Smooth Muscle	Colon
21	chr3:46165200-46165600	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr3:46165200-46165600	Enhancers	Small Intestine	intestine
23	chr3:46165200-46165800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr3:46165200-46165800	Enhancers	Dnd41	blood
25	chr3:46165200-46166000	Enhancers	Spleen	Spleen
26	chr3:46165200-46166200	Enhancers	Hela-S3	cervix
27	chr3:46165200-46166600	Enhancers	Ovary	ovary
28	chr3:46165200-46166800	Enhancers	iPS-15b Cell Line	embryonic stem cell

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