Variant report

Variant	rs11176053
Chromosome Location	chr12:40724030-40724031
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10459264	0.93[JPT][hapmap]
rs10784485	0.81[JPT][hapmap]
rs10784497	0.81[JPT][hapmap]
rs10784498	0.82[GIH][hapmap]
rs10878299	0.81[JPT][hapmap]
rs10878302	0.81[JPT][hapmap]
rs10878336	0.81[JPT][hapmap]
rs10878386	0.93[JPT][hapmap]
rs10878452	0.87[JPT][hapmap]
rs11175793	0.81[JPT][hapmap]
rs11175913	0.81[JPT][hapmap]
rs11175941	0.80[JPT][hapmap]
rs11175959	0.81[JPT][hapmap]
rs11175963	0.81[JPT][hapmap]
rs11175964	0.81[JPT][hapmap]
rs11176052	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[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]
rs11176195	0.87[JPT][hapmap]
rs11176261	0.87[JPT][hapmap]
rs11835105	0.87[JPT][hapmap]
rs12426498	0.87[JPT][hapmap]
rs12426891	0.81[JPT][hapmap]
rs2404832	0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs28365224	0.81[JPT][hapmap]
rs4318033	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044685	chr12:40574460-40771612	Enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv832377	chr12:40704881-40855223	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40640600-40727400	Weak transcription	Spleen	Spleen
2	chr12:40640600-40768200	Weak transcription	Pancreas	Pancrea
3	chr12:40656800-40746400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr12:40674400-40760400	Weak transcription	Lung	lung
5	chr12:40681200-40763000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr12:40684000-40725000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr12:40687200-40765000	Strong transcription	Primary neutrophils fromperipheralblood	blood
8	chr12:40707800-40724400	Strong transcription	Primary B cells from cord blood	blood
9	chr12:40712000-40736600	Weak transcription	Left Ventricle	heart
10	chr12:40712000-40743400	Weak transcription	Aorta	Aorta
11	chr12:40714200-40759200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr12:40716800-40761600	Weak transcription	Fetal Kidney	kidney
13	chr12:40717800-40724600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr12:40719600-40735200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr12:40721000-40734000	Weak transcription	Esophagus	oesophagus
16	chr12:40721600-40726000	Strong transcription	Stomach Smooth Muscle	stomach
17	chr12:40721800-40724800	Strong transcription	Liver	Liver
18	chr12:40722400-40725600	Strong transcription	Skeletal Muscle Female	skeletal muscle
19	chr12:40722400-40726200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr12:40722400-40730800	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr12:40722400-40736200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr12:40722600-40724600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
23	chr12:40722600-40725200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr12:40722600-40728600	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr12:40722600-40730200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr12:40722800-40725000	Weak transcription	Ovary	ovary
27	chr12:40722800-40755800	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr12:40723000-40724200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr12:40723200-40725600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr12:40723400-40724200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr12:40723600-40725000	ZNF genes & repeats	Primary B cells from peripheral blood	blood
32	chr12:40723800-40724200	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
33	chr12:40723800-40724800	ZNF genes & repeats	Brain Anterior Caudate	brain
34	chr12:40723800-40724800	ZNF genes & repeats	Colon Smooth Muscle	Colon
35	chr12:40723800-40725200	ZNF genes & repeats	Adipose Nuclei	Adipose
36	chr12:40723800-40725400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
37	chr12:40723800-40725600	ZNF genes & repeats	A549	lung
38	chr12:40724000-40724800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
39	chr12:40724000-40731600	Weak transcription	Brain Angular Gyrus	brain

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