Variant report

Variant	rs10466523
Chromosome Location	chr11:108814451-108814452
allele	C/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]
rs10502106	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10749927	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs10749928	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs10749929	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[EUR][1000 genomes]
rs10789678	1.00[CEU][hapmap]
rs10789680	0.90[CEU][hapmap]
rs10789681	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs10789682	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10789683	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap]
rs10789688	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10789691	0.88[ASN][1000 genomes]
rs10789693	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10789694	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10789696	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10890893	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs10890894	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs10890895	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes]
rs10890897	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[EUR][1000 genomes]
rs10890898	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[EUR][1000 genomes]
rs10890899	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10890901	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10890902	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10890903	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10890905	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10890908	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10890909	0.87[ASN][1000 genomes]
rs11212797	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11212802	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11212811	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11212816	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11212825	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12420572	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs1824665	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[EUR][1000 genomes]
rs1863366	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2357224	0.85[ASN][1000 genomes]
rs4237580	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4497371	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs4753849	1.00[CEU][hapmap]
rs4753852	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4754357	0.85[ASN][1000 genomes]
rs4754358	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[EUR][1000 genomes]
rs4754359	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4754366	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61912810	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs890237	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.88[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:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108787200-108815000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr11:108797400-108816200	Weak transcription	Fetal Intestine Small	intestine
3	chr11:108798200-108814800	Weak transcription	Brain Anterior Caudate	brain
4	chr11:108798800-108814600	Weak transcription	Fetal Muscle Leg	muscle
5	chr11:108800800-108818000	Weak transcription	HMEC	breast
6	chr11:108805200-108814600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:108805200-108829600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr11:108805800-108814800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr11:108808000-108815400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr11:108808000-108816200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr11:108808600-108815000	Strong transcription	Primary T cells from cord blood	blood
12	chr11:108808800-108819000	Weak transcription	HepG2	liver
13	chr11:108809200-108816200	Weak transcription	Spleen	Spleen
14	chr11:108809600-108814600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr11:108809600-108816800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr11:108809600-108817600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr11:108809600-108819600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr11:108809800-108815000	Weak transcription	Brain Substantia Nigra	brain
19	chr11:108810000-108816600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr11:108810200-108829000	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr11:108811400-108814600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr11:108811400-108817800	Weak transcription	Gastric	stomach
23	chr11:108811400-108818400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr11:108811600-108814600	Weak transcription	Esophagus	oesophagus
25	chr11:108811600-108814800	Weak transcription	Brain Cingulate Gyrus	brain
26	chr11:108811600-108818200	Weak transcription	A549	lung
27	chr11:108811600-108819400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr11:108811800-108817000	Enhancers	Fetal Thymus	thymus
29	chr11:108811800-108818200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:108812000-108816000	Weak transcription	Dnd41	blood
31	chr11:108812000-108816200	Weak transcription	Fetal Stomach	stomach
32	chr11:108812000-108817000	Weak transcription	Aorta	Aorta
33	chr11:108812000-108817200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr11:108812000-108817400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr11:108812000-108817600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr11:108812000-108818200	Weak transcription	K562	blood
37	chr11:108812000-108818800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr11:108812000-108822200	Weak transcription	Pancreas	Pancrea
39	chr11:108812000-108823400	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr11:108812200-108815000	Weak transcription	Primary hematopoietic stem cells	blood
41	chr11:108812200-108815400	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr11:108812200-108816800	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr11:108812200-108818200	Weak transcription	NHEK	skin
44	chr11:108812200-108818400	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr11:108812200-108818800	Weak transcription	Ovary	ovary
46	chr11:108812200-108828800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr11:108812400-108816800	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr11:108812400-108817000	Weak transcription	Adipose Nuclei	Adipose
49	chr11:108812400-108817400	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr11:108812400-108818200	Weak transcription	NH-A	brain

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