Variant report

Variant	rs11962317
Chromosome Location	chr6:35431932-35431933
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11553979	1.00[ASN][1000 genomes]
rs16876572	1.00[CEU][hapmap]
rs16876584	1.00[ASN][1000 genomes]
rs16876587	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800376	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs41271261	1.00[ASN][1000 genomes]
rs45479891	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457822	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[ASN][1000 genomes]
rs6457823	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[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][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]
rs6457824	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6914178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6926662	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[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6927202	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927367	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[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][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]
rs7746718	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7767821	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7768070	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462087	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9462088	1.00[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.87[TSI][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]
rs9462089	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9470027	0.95[ASN][1000 genomes]
rs9470029	0.86[YRI][hapmap]
rs9470030	0.95[ASN][1000 genomes]
rs9470033	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470035	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470038	1.00[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	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
2	nsv528351	chr6:35377922-35465786	Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
3	nsv885799	chr6:35378778-35442397	Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	54 gene(s)	inside rSNPs	diseases
4	nsv462908	chr6:35378778-35457396	Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
5	nsv602910	chr6:35378778-35457396	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
6	nsv519370	chr6:35378778-35537406	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	72 gene(s)	inside rSNPs	diseases
7	nsv969390	chr6:35428276-35434702	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35421000-35435400	Weak transcription	Colon Smooth Muscle	Colon
2	chr6:35421200-35435200	Weak transcription	Brain Angular Gyrus	brain
3	chr6:35421200-35435400	Weak transcription	Brain Anterior Caudate	brain
4	chr6:35421400-35435400	Weak transcription	Colonic Mucosa	Colon
5	chr6:35421400-35435400	Weak transcription	Fetal Kidney	kidney
6	chr6:35421400-35435400	Weak transcription	Pancreas	Pancrea
7	chr6:35421600-35433800	Weak transcription	HUVEC	blood vessel
8	chr6:35421600-35435200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr6:35421600-35435200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr6:35421600-35435400	Weak transcription	A549	lung
11	chr6:35421600-35435400	Weak transcription	NH-A	brain
12	chr6:35422200-35435200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr6:35422200-35435400	Weak transcription	Small Intestine	intestine
14	chr6:35422400-35434800	Strong transcription	Fetal Intestine Small	intestine
15	chr6:35422600-35435400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr6:35422800-35434800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:35422800-35434800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:35422800-35435200	Weak transcription	Fetal Thymus	thymus
19	chr6:35422800-35435400	Weak transcription	Fetal Brain Male	brain
20	chr6:35422800-35435600	Weak transcription	Right Atrium	heart
21	chr6:35423000-35435200	Weak transcription	Fetal Heart	heart
22	chr6:35423000-35435200	Strong transcription	Fetal Stomach	stomach
23	chr6:35423000-35435400	Weak transcription	NHDF-Ad	bronchial
24	chr6:35423200-35432200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr6:35423200-35435200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:35423400-35432000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:35423400-35432000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr6:35423400-35434600	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr6:35423400-35434800	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr6:35423400-35435200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:35423400-35435400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:35424000-35435600	Weak transcription	Psoas Muscle	Psoas
33	chr6:35424200-35435400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:35426000-35432000	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr6:35426600-35435400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:35426800-35432000	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr6:35427200-35435200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr6:35427400-35433400	Weak transcription	Primary hematopoietic stem cells	blood
39	chr6:35427400-35435400	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:35427600-35433400	Weak transcription	Brain Substantia Nigra	brain
41	chr6:35427600-35434000	Weak transcription	HepG2	liver
42	chr6:35427600-35435400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr6:35427600-35435400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr6:35427600-35435400	Weak transcription	Left Ventricle	heart
45	chr6:35427600-35435400	Weak transcription	Rectal Smooth Muscle	rectum
46	chr6:35427800-35433400	Weak transcription	Primary B cells from cord blood	blood
47	chr6:35427800-35433400	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr6:35427800-35433400	Weak transcription	Hela-S3	cervix
49	chr6:35427800-35434000	Weak transcription	HSMMtube	muscle
50	chr6:35427800-35435200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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