Variant report

Variant	rs10789683
Chromosome Location	chr11:108679467-108679468
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10749923	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10749926	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10749927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10749928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10749929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10789675	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10789676	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10789677	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10789678	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10789680	0.90[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10789681	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10789682	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.97[EUR][1000 genomes]
rs10789685	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10789688	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10789691	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10789693	0.96[CEU][hapmap];0.87[CHB][hapmap];0.83[EUR][1000 genomes]
rs10789694	0.82[EUR][1000 genomes]
rs10890877	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10890879	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10890883	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10890888	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10890889	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10890893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10890894	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10890895	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.97[EUR][1000 genomes]
rs10890897	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10890898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10890899	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10890901	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10890902	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10890903	0.96[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10890905	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs11212750	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11212771	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11212774	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11212797	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11212802	0.87[EUR][1000 genomes]
rs11212811	0.90[EUR][1000 genomes]
rs11212816	0.96[CEU][hapmap];0.87[CHB][hapmap];0.80[EUR][1000 genomes]
rs11530525	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12420572	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1824664	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1824665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1863366	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2169562	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2306118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3781864	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3781866	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3781867	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3902843	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4027488	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4237580	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4497371	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs4753849	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4753852	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[EUR][1000 genomes]
rs4754354	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4754357	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4754358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4754359	0.90[EUR][1000 genomes]
rs61912810	0.86[EUR][1000 genomes]
rs7103086	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7116062	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7940595	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs890237	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]

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	nsv1052254	chr11:108122683-108845008	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv541164	chr11:108122683-108845008	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv898386	chr11:108409442-108831875	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv898388	chr11:108440814-108724639	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108657800-108688200	Weak transcription	NHEK	skin
2	chr11:108664200-108691000	Weak transcription	K562	blood
3	chr11:108667000-108679800	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr11:108670400-108681400	Weak transcription	A549	lung
5	chr11:108672600-108679800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr11:108673000-108680000	Weak transcription	Aorta	Aorta
7	chr11:108675000-108689600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr11:108675600-108694800	Weak transcription	Ovary	ovary
9	chr11:108675600-108709400	Weak transcription	Left Ventricle	heart
10	chr11:108675800-108700000	Weak transcription	GM12878-XiMat	blood
11	chr11:108676000-108679800	Weak transcription	Fetal Lung	lung
12	chr11:108676000-108708000	Weak transcription	Primary B cells from cord blood	blood
13	chr11:108677400-108679800	Weak transcription	Primary T cells from cord blood	blood
14	chr11:108677600-108709600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr11:108677800-108686600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr11:108678600-108680600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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