Variant report

Variant	rs2576171
Chromosome Location	chr10:90257225-90257226
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs10509552	0.82[JPT][hapmap]
rs1067839	0.82[CEU][hapmap];0.90[AMR][1000 genomes]
rs1067840	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs10736351	0.82[CEU][hapmap];0.93[AMR][1000 genomes]
rs10736352	0.93[AMR][1000 genomes]
rs10736354	0.85[AMR][1000 genomes]
rs10749589	0.93[AMR][1000 genomes]
rs10749590	0.82[CEU][hapmap];0.96[AMR][1000 genomes]
rs10749591	0.96[AMR][1000 genomes]
rs10788598	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs10788599	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs10788600	0.82[CEU][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes]
rs10788602	0.81[CEU][hapmap];0.93[AMR][1000 genomes]
rs10887821	0.82[CEU][hapmap];0.90[AMR][1000 genomes]
rs10887823	0.81[CEU][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes]
rs10887824	0.96[AMR][1000 genomes]
rs1169043	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1342450	0.86[CEU][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes]
rs1342456	0.96[AMR][1000 genomes]
rs1578696	0.83[CHB][hapmap]
rs1750274	0.85[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1935579	0.81[CEU][hapmap];0.96[AMR][1000 genomes]
rs1935581	0.83[CHB][hapmap]
rs1935582	0.83[CHB][hapmap]
rs1935584	0.89[AMR][1000 genomes]
rs2096194	0.94[AMR][1000 genomes]
rs2185786	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2209553	0.81[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes]
rs2312610	0.82[CEU][hapmap];0.96[AMR][1000 genomes]
rs2433340	0.80[CEU][hapmap]
rs2437875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2477954	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477956	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576159	0.82[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes]
rs2576169	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576170	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576172	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576176	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap]
rs2576181	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765440	0.82[CHB][hapmap]
rs2765454	0.85[AMR][1000 genomes]
rs2765456	0.81[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.88[AMR][1000 genomes]
rs2872092	0.93[AMR][1000 genomes]
rs4509673	0.93[AMR][1000 genomes]
rs4596981	0.93[AMR][1000 genomes]
rs4606392	0.81[CEU][hapmap];0.96[AMR][1000 genomes]
rs4619060	0.93[AMR][1000 genomes]
rs4934404	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs4934409	0.85[CEU][hapmap];0.96[AMR][1000 genomes]
rs4934411	0.81[CEU][hapmap];0.93[AMR][1000 genomes]
rs6586132	0.82[CEU][hapmap]
rs6586139	0.96[AMR][1000 genomes]
rs7899828	0.96[AMR][1000 genomes]
rs7909697	0.82[CEU][hapmap];0.93[AMR][1000 genomes]
rs7910594	0.82[JPT][hapmap];0.90[AMR][1000 genomes]
rs7911996	0.82[CEU][hapmap];0.90[AMR][1000 genomes]
rs7921352	0.80[CEU][hapmap];0.86[AMR][1000 genomes]
rs792208	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs792211	0.89[AMR][1000 genomes]
rs792214	0.89[AMR][1000 genomes]
rs792215	0.90[AMR][1000 genomes]
rs792235	0.82[CEU][hapmap];0.89[AMR][1000 genomes]
rs7922551	0.93[AMR][1000 genomes]
rs806694	0.82[CEU][hapmap];0.89[AMR][1000 genomes]
rs813782	0.81[CEU][hapmap];0.89[AMR][1000 genomes]
rs814242	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
7	nsv825500	chr10:90221443-90302503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv533167	chr10:90236197-90341481	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90251200-90258800	Weak transcription	Fetal Thymus	thymus
2	chr10:90253400-90258000	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr10:90254000-90259400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr10:90254000-90259600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr10:90254200-90257400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr10:90254200-90259200	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr10:90254200-90259400	Weak transcription	Osteobl	bone
8	chr10:90254200-90259600	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr10:90254200-90259600	Weak transcription	NHDF-Ad	bronchial
10	chr10:90254600-90259000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr10:90255800-90259800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr10:90256000-90258800	Weak transcription	Ovary	ovary
13	chr10:90256000-90259800	Weak transcription	Fetal Kidney	kidney
14	chr10:90256000-90260000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr10:90256200-90258000	Enhancers	Liver	Liver
16	chr10:90256400-90258800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:90256400-90259400	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr10:90256600-90258400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr10:90257200-90259800	Weak transcription	Fetal Lung	lung

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