Variant report

Variant	rs11187837
Chromosome Location	chr10:96035980-96035981
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:96025572..96028379-chr10:96035145..96036744,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10509671	1.00[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10509672	1.00[YRI][hapmap];0.88[AMR][1000 genomes]
rs10882435	0.84[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10882436	0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11187826	0.88[AMR][1000 genomes]
rs11187840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187842	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187845	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187847	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11187851	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11187852	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187856	0.96[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11187863	0.86[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187864	0.84[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187866	0.86[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187869	0.85[ASN][1000 genomes]
rs11187870	0.86[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11187877	0.96[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187882	0.96[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187883	0.86[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187890	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187893	0.86[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11187894	0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11187895	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187897	0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187899	0.86[ASN][1000 genomes]
rs11187900	0.86[ASN][1000 genomes]
rs11187906	0.84[AMR][1000 genomes]
rs11187969	1.00[YRI][hapmap]
rs11558740	0.86[ASN][1000 genomes]
rs12217597	0.86[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12217792	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12220091	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12781451	0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs17109875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3740359	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3740360	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][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]
rs3740365	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3781264	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3781266	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6583935	0.82[JPT][hapmap]
rs7096678	0.93[ASN][1000 genomes]
rs7096883	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7100626	0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7101207	0.88[AMR][1000 genomes]
rs752140	0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs753724	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]

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	nsv1036676	chr10:95851376-96103876	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Sudden cardiac arrest	21658281	GWAS catalog

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95994600-96045400	Weak transcription	Lung	lung
2	chr10:95995800-96051800	Weak transcription	Fetal Kidney	kidney
3	chr10:96015000-96070200	Weak transcription	Fetal Brain Female	brain
4	chr10:96020800-96039800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr10:96023600-96038400	Strong transcription	Rectal Mucosa Donor 31	rectum
6	chr10:96028800-96041200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr10:96030400-96037000	Weak transcription	Gastric	stomach
8	chr10:96031000-96037000	Weak transcription	Colonic Mucosa	Colon
9	chr10:96031600-96039200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr10:96031800-96038000	Strong transcription	Cortex derived primary cultured neurospheres	brain
11	chr10:96031800-96048000	Weak transcription	Brain Germinal Matrix	brain
12	chr10:96031800-96121000	Weak transcription	Stomach Mucosa	stomach
13	chr10:96032600-96037400	Strong transcription	Fetal Intestine Small	intestine
14	chr10:96032600-96037800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr10:96033600-96036000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr10:96033600-96036000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr10:96033600-96036000	Enhancers	Liver	Liver
18	chr10:96033600-96036200	Enhancers	HSMMtube	muscle
19	chr10:96033800-96036000	Enhancers	Left Ventricle	heart
20	chr10:96033800-96036000	Enhancers	Pancreas	Pancrea
21	chr10:96033800-96036000	Enhancers	Psoas Muscle	Psoas
22	chr10:96033800-96036200	Enhancers	Ovary	ovary
23	chr10:96034400-96039600	Weak transcription	Brain Hippocampus Middle	brain
24	chr10:96034600-96039800	Weak transcription	Adipose Nuclei	Adipose
25	chr10:96034600-96042000	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr10:96034600-96046200	Weak transcription	Brain Angular Gyrus	brain
27	chr10:96034600-96052600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:96034800-96036400	Weak transcription	Placenta	Placenta
29	chr10:96034800-96038800	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr10:96034800-96039600	Weak transcription	Osteobl	bone
31	chr10:96034800-96039800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr10:96034800-96040600	Weak transcription	A549	lung
33	chr10:96034800-96041400	Weak transcription	Duodenum Mucosa	Duodenum
34	chr10:96034800-96043600	Weak transcription	Aorta	Aorta
35	chr10:96034800-96043600	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr10:96034800-96045800	Weak transcription	HSMM	muscle
37	chr10:96034800-96048600	Weak transcription	Spleen	Spleen
38	chr10:96035000-96036600	Weak transcription	Fetal Intestine Large	intestine
39	chr10:96035000-96039000	Weak transcription	Colon Smooth Muscle	Colon
40	chr10:96035000-96039200	Weak transcription	Rectal Smooth Muscle	rectum
41	chr10:96035000-96045200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr10:96035200-96037000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr10:96035200-96039200	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr10:96035200-96046600	Weak transcription	NH-A	brain
45	chr10:96035400-96036000	Enhancers	Fetal Muscle Leg	muscle
46	chr10:96035400-96037600	Strong transcription	Fetal Stomach	stomach
47	chr10:96035400-96039400	Weak transcription	Fetal Heart	heart
48	chr10:96035400-96043800	Weak transcription	Stomach Smooth Muscle	stomach
49	chr10:96035400-96052400	Weak transcription	Brain Substantia Nigra	brain
50	chr10:96035600-96036000	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links