Variant report

Variant	rs3825015
Chromosome Location	chr11:64591386-64591387
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:64590522..64592633-chr11:64597511..64599127,2	MCF-7	breast:
2	chr11:64590245..64591969-chr11:64610109..64611646,2	MCF-7	breast:
3	chr11:64588433..64593089-chr11:64594022..64600372,9	K562	blood:
4	chr11:64583498..64585196-chr11:64590480..64592406,2	K562	blood:
5	chr11:64586563..64588523-chr11:64589610..64592026,2	K562	blood:
6	chr11:64590684..64592948-chr11:64606233..64608330,3	K562	blood:
7	chr11:64590759..64592605-chr11:64596229..64597954,2	MCF-7	breast:
8	chr11:64576932..64579556-chr11:64591225..64593045,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000133895	Chromatin interaction
ENSG00000171219	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11231882	0.80[ASN][1000 genomes]
rs11231886	0.84[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11231889	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11231890	1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12365548	0.90[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12365873	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12365878	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12790925	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12798965	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35654492	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35938015	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4930277	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4930682	0.85[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4930683	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs544822	0.82[JPT][hapmap]
rs58790228	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs647145	0.82[JPT][hapmap]
rs653343	0.82[JPT][hapmap]
rs670358	0.86[JPT][hapmap]
rs7933683	0.85[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7936466	0.89[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7942905	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs916606	0.80[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528506	chr11:64345448-64701030	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1075 gene(s)	inside rSNPs	diseases
2	nsv897695	chr11:64357072-64701030	Weak transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1075 gene(s)	inside rSNPs	diseases
3	nsv897698	chr11:64447420-64621573	Active TSS Bivalent Enhancer Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv897699	chr11:64447420-64638041	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
5	nsv897700	chr11:64447420-64701030	Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1071 gene(s)	inside rSNPs	diseases
6	nsv1049744	chr11:64486615-64630149	Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
7	nsv832189	chr11:64487183-64620199	Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
8	nsv469962	chr11:64527080-64621573	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
9	nsv897704	chr11:64584987-64701030	Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1028 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64578200-64599000	Weak transcription	Spleen	Spleen
2	chr11:64578600-64591600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr11:64578600-64602600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr11:64578800-64592600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr11:64578800-64592800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr11:64578800-64592800	Weak transcription	NHEK	skin
7	chr11:64578800-64596800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr11:64578800-64601400	Weak transcription	Stomach Mucosa	stomach
9	chr11:64582600-64609600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr11:64582600-64611000	Weak transcription	Primary B cells from cord blood	blood
11	chr11:64582800-64593600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr11:64583200-64593200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr11:64583400-64592800	Weak transcription	Fetal Intestine Large	intestine
14	chr11:64583400-64592800	Weak transcription	Pancreas	Pancrea
15	chr11:64583400-64593800	Weak transcription	HMEC	breast
16	chr11:64585000-64591400	Weak transcription	Primary T cells from cord blood	blood
17	chr11:64585000-64594400	Weak transcription	Colonic Mucosa	Colon
18	chr11:64588400-64591600	Weak transcription	Gastric	stomach
19	chr11:64588600-64592200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr11:64589000-64591400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr11:64589200-64592800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr11:64589400-64592000	Enhancers	Brain Anterior Caudate	brain
23	chr11:64589400-64593400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr11:64589400-64593800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr11:64589600-64593600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr11:64589600-64600800	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr11:64590400-64592800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr11:64590400-64593000	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr11:64590400-64593000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr11:64590400-64593000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr11:64590400-64602400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr11:64590600-64591400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr11:64590600-64609400	Weak transcription	Fetal Lung	lung
34	chr11:64590800-64593000	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr11:64590800-64593000	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr11:64590800-64593000	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr11:64590800-64602600	Strong transcription	Placenta	Placenta
38	chr11:64590800-64604600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr11:64591000-64592000	Enhancers	Brain Cingulate Gyrus	brain
40	chr11:64591000-64592000	Enhancers	Brain Substantia Nigra	brain
41	chr11:64591000-64592200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr11:64591000-64602600	Strong transcription	Placenta Amnion	Placenta Amnion
43	chr11:64591000-64610600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr11:64591200-64591400	Enhancers	Brain Hippocampus Middle	brain
45	chr11:64591200-64591800	Enhancers	Brain Angular Gyrus	brain
46	chr11:64591200-64592000	Enhancers	Brain Inferior Temporal Lobe	brain
47	chr11:64591200-64593600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr11:64591200-64593600	Weak transcription	Lung	lung
49	chr11:64591200-64594000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
50	chr11:64591200-64602400	Strong transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links