Variant report

Variant	rs10789696
Chromosome Location	chr11:108819045-108819046
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10466523	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10502106	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10749927	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs10749928	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs10749929	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs10789678	0.92[CEU][hapmap]
rs10789680	0.81[CEU][hapmap]
rs10789681	0.92[CEU][hapmap];0.82[CHB][hapmap]
rs10789682	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10789683	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs10789688	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10789691	0.86[ASN][1000 genomes]
rs10789693	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10789694	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10890893	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs10890894	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs10890895	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs10890897	0.92[CEU][hapmap];0.87[CHB][hapmap];0.81[EUR][1000 genomes]
rs10890898	0.92[CEU][hapmap];0.87[CHB][hapmap];0.80[EUR][1000 genomes]
rs10890899	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10890901	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10890902	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10890903	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10890905	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10890908	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10890909	0.89[ASN][1000 genomes]
rs11212797	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11212802	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11212811	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11212816	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11212825	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12420572	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs1824665	0.92[CEU][hapmap];0.87[CHB][hapmap]
rs1863366	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2357224	0.83[ASN][1000 genomes]
rs4237580	0.83[ASN][1000 genomes]
rs4497371	0.92[CEU][hapmap]
rs4753849	0.92[CEU][hapmap]
rs4753852	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4754357	0.83[ASN][1000 genomes]
rs4754358	0.92[CEU][hapmap];0.87[CHB][hapmap];0.80[EUR][1000 genomes]
rs4754359	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4754366	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61912810	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs890237	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.86[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	nsv898389	chr11:108724639-108891986	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108805200-108829600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:108809600-108819600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:108810200-108829000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr11:108811600-108819400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr11:108812000-108822200	Weak transcription	Pancreas	Pancrea
6	chr11:108812000-108823400	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr11:108812200-108828800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr11:108813000-108819200	Weak transcription	Primary B cells from cord blood	blood
9	chr11:108815000-108819200	Weak transcription	Primary T cells from cord blood	blood
10	chr11:108818000-108819600	Enhancers	HMEC	breast
11	chr11:108818200-108819200	Enhancers	K562	blood
12	chr11:108818200-108819200	Enhancers	NH-A	brain
13	chr11:108818200-108819400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr11:108818200-108819400	Enhancers	NHEK	skin
15	chr11:108818400-108819200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr11:108818400-108819200	Enhancers	Muscle Satellite Cultured Cells	--
17	chr11:108818600-108819400	Flanking Active TSS	A549	lung
18	chr11:108818800-108819200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:108818800-108819200	Enhancers	HUVEC	blood vessel
20	chr11:108818800-108819400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr11:108819000-108819400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr11:108819000-108819600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr11:108819000-108819600	Enhancers	HepG2	liver

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