Variant report

Variant	rs11715107
Chromosome Location	chr3:23278900-23278901
allele	A/C
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: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1027380	0.88[ASN][1000 genomes]
rs11707450	0.91[YRI][hapmap]
rs11711630	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715035	0.90[GIH][hapmap];0.91[YRI][hapmap]
rs13087416	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095887	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1390083	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1495133	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1495134	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]
rs1552931	0.87[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1692619	0.91[YRI][hapmap]
rs1695180	0.91[YRI][hapmap]
rs17342342	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17402378	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	0.87[CEU][hapmap];1.00[YRI][hapmap]
rs2047340	1.00[CEU][hapmap];0.80[CHB][hapmap]
rs2055155	0.87[CHB][hapmap];0.84[JPT][hapmap];0.91[YRI][hapmap];0.81[ASN][1000 genomes]
rs2055156	0.82[GIH][hapmap];0.91[YRI][hapmap]
rs2088129	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2101811	0.91[YRI][hapmap]
rs2132145	0.83[ASW][hapmap];1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2132147	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2132148	0.84[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2132149	0.83[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2201484	0.91[YRI][hapmap]
rs2359755	0.86[YRI][hapmap]
rs2359761	0.91[YRI][hapmap]
rs36073188	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4293660	0.82[ASN][1000 genomes]
rs4334589	0.97[ASN][1000 genomes]
rs4858063	0.90[YRI][hapmap]
rs4858065	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4858066	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858070	0.90[YRI][hapmap]
rs4858488	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4858490	0.89[YRI][hapmap]
rs4858495	0.91[YRI][hapmap]
rs4858498	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4858499	0.89[YRI][hapmap]
rs4858507	0.89[YRI][hapmap]
rs5023615	0.91[YRI][hapmap]
rs6550760	0.91[YRI][hapmap]
rs6769959	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6790185	0.96[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6790327	0.91[YRI][hapmap]
rs6799861	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6801824	0.91[YRI][hapmap]
rs6806387	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73149661	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7618910	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7629327	0.87[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.86[ASN][1000 genomes]
rs7635882	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7636532	0.80[ASN][1000 genomes]
rs7643705	0.91[YRI][hapmap]
rs7648425	0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.88[ASN][1000 genomes]
rs778463	0.91[YRI][hapmap]
rs778493	1.00[CEU][hapmap];0.80[CHB][hapmap];0.88[JPT][hapmap]
rs903519	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs923996	0.92[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs931609	0.91[YRI][hapmap]
rs9757330	0.91[YRI][hapmap]
rs9758590	0.91[YRI][hapmap]
rs9815299	0.91[YRI][hapmap]
rs9826103	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9836135	0.88[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9840015	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9844558	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[CHD][hapmap];0.84[JPT][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9848331	0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[ASN][1000 genomes]
rs9848389	0.90[YRI][hapmap]
rs9875910	0.91[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 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
3	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23265400-23282000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:23272600-23283000	Weak transcription	HMEC	breast
3	chr3:23274400-23280800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:23274600-23279800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:23274600-23281400	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr3:23274600-23283000	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:23274800-23280200	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:23274800-23298200	Weak transcription	Aorta	Aorta
9	chr3:23275000-23280800	Weak transcription	Brain Anterior Caudate	brain
10	chr3:23276400-23279600	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:23276800-23281000	Weak transcription	Fetal Heart	heart
12	chr3:23277000-23279600	Weak transcription	Brain Hippocampus Middle	brain
13	chr3:23277400-23279800	Weak transcription	Psoas Muscle	Psoas
14	chr3:23277400-23280800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr3:23277800-23279200	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr3:23278000-23280200	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr3:23278200-23279000	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr3:23278200-23279200	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr3:23278400-23279800	Weak transcription	Brain Substantia Nigra	brain
20	chr3:23278400-23280000	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr3:23278400-23280000	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr3:23278400-23280800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:23278400-23280800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr3:23278600-23279800	Weak transcription	Primary B cells from peripheral blood	blood
25	chr3:23278600-23279800	Weak transcription	Brain Angular Gyrus	brain
26	chr3:23278600-23280200	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr3:23278600-23280200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr3:23278600-23281200	Weak transcription	Adipose Nuclei	Adipose
29	chr3:23278600-23289600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr3:23278800-23283000	Weak transcription	Left Ventricle	heart

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