Variant report

Variant	rs11196841
Chromosome Location	chr10:116417367-116417368
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10444096	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10444097	0.92[ASN][1000 genomes]
rs10787539	0.92[JPT][hapmap]
rs10787540	0.92[JPT][hapmap]
rs11196798	0.92[JPT][hapmap]
rs11196802	1.00[ASW][hapmap];0.92[JPT][hapmap]
rs11196804	0.81[ASN][1000 genomes]
rs11196806	1.00[ASW][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11196810	1.00[ASW][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11196813	0.85[ASN][1000 genomes]
rs11196814	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11196825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11196826	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11196844	0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs11196845	1.00[CHD][hapmap];0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs11196853	0.81[CHD][hapmap];0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs11196854	1.00[CHD][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11196856	0.96[ASN][1000 genomes]
rs11196858	0.96[ASN][1000 genomes]
rs11196859	0.94[ASN][1000 genomes]
rs11196861	0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs12146316	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12359503	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs12360417	0.83[ASN][1000 genomes]
rs12763337	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12768716	1.00[ASW][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12772864	1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17719647	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34811081	0.85[ASN][1000 genomes]
rs4237504	0.85[ASN][1000 genomes]
rs4751620	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs4752039	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs4752040	0.83[ASN][1000 genomes]
rs4752044	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs4752047	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs4752071	1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4752089	0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs7080854	0.92[JPT][hapmap]
rs7094673	0.92[JPT][hapmap]
rs7907371	0.94[ASN][1000 genomes]
rs955634	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
7	nsv528140	chr10:116417012-116417547	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116394400-116422600	Weak transcription	Fetal Intestine Small	intestine
2	chr10:116406200-116422000	Weak transcription	Fetal Lung	lung
3	chr10:116408600-116422000	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr10:116408600-116441400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr10:116408800-116427400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr10:116409600-116421200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr10:116409600-116423600	Weak transcription	Esophagus	oesophagus
8	chr10:116410800-116422000	Weak transcription	Brain Hippocampus Middle	brain
9	chr10:116411000-116417400	Enhancers	Right Atrium	heart
10	chr10:116411400-116418800	Enhancers	Fetal Heart	heart
11	chr10:116412600-116423800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr10:116413400-116418000	Weak transcription	Psoas Muscle	Psoas
13	chr10:116413800-116422600	Weak transcription	Fetal Intestine Large	intestine
14	chr10:116414000-116422200	Weak transcription	Brain Anterior Caudate	brain
15	chr10:116415000-116422400	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr10:116415200-116420400	Weak transcription	HepG2	liver
17	chr10:116415200-116422000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:116415200-116422200	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr10:116415600-116438200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr10:116415800-116417800	Weak transcription	Left Ventricle	heart
21	chr10:116415800-116417800	Weak transcription	Lung	lung
22	chr10:116415800-116421200	Weak transcription	Pancreas	Pancrea
23	chr10:116416800-116418000	Enhancers	HUVEC	blood vessel
24	chr10:116417000-116417400	Weak transcription	Right Ventricle	heart

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