Variant report

Variant	rs1495134
Chromosome Location	chr3:23270047-23270048
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:23267196..23270682-chr3:23275861..23279079,3	MCF-7	breast:

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs1027380	0.81[ASN][1000 genomes]
rs11707450	0.91[YRI][hapmap]
rs11711630	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11715035	0.91[YRI][hapmap]
rs11715107	1.00[ASW][hapmap];0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13087416	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13095887	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1390083	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1495133	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1552931	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1692619	0.91[YRI][hapmap]
rs1695180	0.91[YRI][hapmap]
rs17342342	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17402378	0.89[GIH][hapmap];0.91[YRI][hapmap]
rs1874234	0.91[YRI][hapmap]
rs1874502	0.89[YRI][hapmap]
rs1874503	0.91[YRI][hapmap]
rs2036044	0.91[YRI][hapmap]
rs2036045	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs2047340	0.96[CEU][hapmap];0.86[CHB][hapmap]
rs2055155	0.93[CHB][hapmap];0.84[JPT][hapmap];0.91[YRI][hapmap]
rs2055156	0.91[YRI][hapmap]
rs2088129	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2101811	0.91[YRI][hapmap]
rs2132145	0.83[ASW][hapmap];0.96[CEU][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2132147	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2132148	0.87[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2132149	0.87[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2201484	0.91[YRI][hapmap]
rs2359755	0.86[YRI][hapmap]
rs2359761	0.91[YRI][hapmap]
rs36073188	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4334589	0.90[ASN][1000 genomes]
rs4858063	0.90[YRI][hapmap]
rs4858065	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4858066	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4858070	0.90[YRI][hapmap]
rs4858488	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4858490	0.89[YRI][hapmap]
rs4858495	0.91[YRI][hapmap]
rs4858498	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4858499	0.89[YRI][hapmap]
rs4858507	0.89[YRI][hapmap]
rs5023615	0.91[YRI][hapmap]
rs6550760	0.91[YRI][hapmap]
rs6769959	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6790185	1.00[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6790327	0.91[YRI][hapmap]
rs6799861	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6801824	0.91[YRI][hapmap]
rs6806387	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73149661	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7618910	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7629327	0.93[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs7635882	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7643705	0.91[YRI][hapmap]
rs7648425	0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.81[ASN][1000 genomes]
rs778463	0.91[YRI][hapmap]
rs778493	0.96[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap]
rs903519	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs923996	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs931609	0.91[YRI][hapmap]
rs9757330	0.91[YRI][hapmap]
rs9758590	0.91[YRI][hapmap]
rs9815299	0.86[GIH][hapmap];0.91[YRI][hapmap]
rs9826103	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9836135	0.83[CEU][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs9840015	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9844558	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9848331	0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs9848389	0.90[YRI][hapmap]
rs9875910	0.89[GIH][hapmap];0.91[YRI][hapmap]

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	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23246400-23273400	Weak transcription	Aorta	Aorta
2	chr3:23249000-23273400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:23260800-23270400	Weak transcription	Psoas Muscle	Psoas
4	chr3:23260800-23273400	Weak transcription	Right Atrium	heart
5	chr3:23261000-23273400	Weak transcription	Ovary	ovary
6	chr3:23261000-23274400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:23261200-23272600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr3:23261400-23278200	Weak transcription	Brain Angular Gyrus	brain
9	chr3:23265400-23282000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:23266200-23277800	Weak transcription	Fetal Thymus	thymus
11	chr3:23267600-23274400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:23269400-23270200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr3:23269400-23270200	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr3:23269400-23273000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr3:23269400-23273200	Weak transcription	Brain Substantia Nigra	brain
16	chr3:23269400-23274200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr3:23269600-23271600	Weak transcription	Primary B cells from peripheral blood	blood

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