Variant report

Variant	rs9863693
Chromosome Location	chr3:179852910-179852911
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10222466	0.80[EUR][1000 genomes]
rs10937018	0.81[AFR][1000 genomes]
rs10937020	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11709960	0.85[EUR][1000 genomes]
rs11718127	0.98[ASN][1000 genomes]
rs12487650	0.85[EUR][1000 genomes]
rs12492526	0.83[ASN][1000 genomes]
rs12633907	0.81[ASN][1000 genomes]
rs12636328	0.82[EUR][1000 genomes]
rs1404743	0.94[ASN][1000 genomes]
rs1404744	0.92[EUR][1000 genomes]
rs1525277	0.83[EUR][1000 genomes]
rs1568859	0.85[EUR][1000 genomes]
rs1568860	0.82[ASN][1000 genomes]
rs16831126	0.98[ASN][1000 genomes]
rs16831219	0.82[ASN][1000 genomes]
rs1852121	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1852122	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1915908	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1921676	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1950124	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2049472	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2177723	0.87[ASN][1000 genomes]
rs2339967	0.85[EUR][1000 genomes]
rs2339968	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2879654	0.82[ASN][1000 genomes]
rs28865282	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3849420	0.82[EUR][1000 genomes]
rs4376038	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs4854901	0.98[ASN][1000 genomes]
rs4854902	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4854961	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4854962	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4855139	0.81[AFR][1000 genomes]
rs59555202	0.97[EUR][1000 genomes]
rs60057308	0.98[ASN][1000 genomes]
rs62290558	0.98[ASN][1000 genomes]
rs6790229	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6790465	0.80[EUR][1000 genomes]
rs67979781	0.98[ASN][1000 genomes]
rs68014168	0.90[ASN][1000 genomes]
rs6803764	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7618051	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7621628	0.81[EUR][1000 genomes]
rs7635210	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7637854	0.82[EUR][1000 genomes]
rs7637930	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7644566	0.90[JPT][hapmap]
rs7652876	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9290696	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9290697	0.95[CEU][hapmap]
rs939440	0.90[JPT][hapmap]
rs939441	0.90[JPT][hapmap]
rs939442	0.90[JPT][hapmap]
rs9821124	0.84[EUR][1000 genomes]
rs9837718	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9845934	0.95[CEU][hapmap]
rs9849935	0.82[AFR][1000 genomes]
rs9851723	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9857420	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9871928	0.98[ASN][1000 genomes]
rs9880357	0.85[AMR][1000 genomes];0.82[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	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv878040	chr3:179823887-180128288	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179847200-179853400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:179848600-179859600	Weak transcription	HMEC	breast
3	chr3:179851200-179854600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:179852400-179853600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:179852400-179854000	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:179852600-179853000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:179852600-179854000	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr3:179852600-179854200	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr3:179852800-179853000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:179852800-179853200	Enhancers	H9 Cell Line	embryonic stem cell
11	chr3:179852800-179853400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr3:179852800-179853600	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr3:179852800-179854000	Enhancers	H1 Cell Line	embryonic stem cell
14	chr3:179852800-179854400	Enhancers	HUES48 Cell Line	embryonic stem cell

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