Variant report

Variant	rs3794087
Chromosome Location	chr11:35329615-35329616
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:35325471..35328883-chr11:35329361..35332564,3	MCF-7	breast:
2	chr11:35325412..35330750-chr11:35411649..35414159,5	MCF-7	breast:

Extended variants
information (count: 80 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1042113	0.92[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10444271	0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10488816	0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs10488817	0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10488818	0.92[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10836366	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10836368	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs10836373	0.81[EUR][1000 genomes]
rs11033050	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11033053	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11033054	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11033055	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11033056	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11033057	0.97[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11033058	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11033060	0.97[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11033063	0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11033064	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11033071	0.95[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11033080	0.90[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs11033083	0.80[EUR][1000 genomes]
rs12146523	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12418812	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12574069	0.95[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12576364	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12576375	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs16927292	0.81[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.86[MKK][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2236272	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2273687	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2901534	0.81[EUR][1000 genomes]
rs3794088	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3794093	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3794094	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3794097	0.92[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.95[MEX][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3829266	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3847612	0.84[ASW][hapmap];0.95[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3847613	0.84[ASW][hapmap];0.95[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3847620	0.90[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs3891872	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3895234	0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3911898	0.90[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.81[EUR][1000 genomes]
rs4083481	0.95[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs41352148	0.92[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs41427147	0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap]
rs41525047	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4237664	0.81[EUR][1000 genomes]
rs4582949	0.81[EUR][1000 genomes]
rs4756207	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4756210	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4756211	0.95[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4756219	0.90[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.85[JPT][hapmap]
rs4756220	0.90[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]
rs4756221	0.90[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.85[JPT][hapmap]
rs55709010	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55834429	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56028027	0.82[EUR][1000 genomes]
rs56043665	0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56140126	0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56402269	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61880962	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61882290	0.94[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs61882291	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs61882292	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs61882293	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6484785	0.81[CEU][hapmap];0.83[CHB][hapmap]
rs7111043	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7111055	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7111179	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7114383	0.90[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.81[EUR][1000 genomes]
rs7129693	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs72638196	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs72638197	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs752949	0.92[CHB][hapmap];0.89[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7927975	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7934047	0.90[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.85[JPT][hapmap];0.80[EUR][1000 genomes]
rs7940391	0.89[AMR][1000 genomes];0.87[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	nsv1045837	chr11:34893992-35395190	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv832120	chr11:35277410-35490304	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv2758264	chr11:35319320-35480522	Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv2759819	chr11:35319320-35480522	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Essential tremor	22764253	GWAS catalog

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:35324000-35336200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr11:35324400-35343200	Weak transcription	Gastric	stomach
3	chr11:35325200-35339000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr11:35325600-35339200	Strong transcription	Cortex derived primary cultured neurospheres	brain
5	chr11:35327000-35333400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr11:35327000-35343400	Weak transcription	Fetal Lung	lung
7	chr11:35327200-35340600	Weak transcription	Brain Substantia Nigra	brain
8	chr11:35327400-35329800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr11:35327400-35339000	Weak transcription	Aorta	Aorta
10	chr11:35327600-35330800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr11:35327600-35335200	Weak transcription	Esophagus	oesophagus
12	chr11:35327600-35336600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr11:35327600-35337400	Weak transcription	NHDF-Ad	bronchial
14	chr11:35327800-35330800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr11:35327800-35332200	Weak transcription	Primary B cells from peripheral blood	blood
16	chr11:35327800-35333000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr11:35327800-35333200	Weak transcription	GM12878-XiMat	blood
18	chr11:35327800-35334800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr11:35327800-35334800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr11:35327800-35334800	Weak transcription	Pancreas	Pancrea
21	chr11:35327800-35335000	Weak transcription	Brain Germinal Matrix	brain
22	chr11:35327800-35335200	Weak transcription	Left Ventricle	heart
23	chr11:35327800-35335200	Weak transcription	Spleen	Spleen
24	chr11:35327800-35340400	Weak transcription	Brain Hippocampus Middle	brain
25	chr11:35327800-35340800	Weak transcription	NHLF	lung
26	chr11:35328600-35329800	Strong transcription	Liver	Liver
27	chr11:35328800-35330200	Genic enhancers	Fetal Brain Female	brain
28	chr11:35329000-35329800	Enhancers	Brain Angular Gyrus	brain
29	chr11:35329000-35329800	Genic enhancers	Brain Cingulate Gyrus	brain
30	chr11:35329000-35334000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
31	chr11:35329200-35330600	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr11:35329400-35329800	Enhancers	Placenta	Placenta
33	chr11:35329400-35330000	Genic enhancers	Fetal Brain Male	brain
34	chr11:35329400-35330000	Weak transcription	HepG2	liver
35	chr11:35329400-35330200	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr11:35329400-35334800	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr11:35329600-35331400	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr11:35329600-35333200	Weak transcription	Primary B cells from cord blood	blood
39	chr11:35329600-35335000	Weak transcription	Brain Anterior Caudate	brain
40	chr11:35329600-35335200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr11:35329600-35335200	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr11:35329600-35340800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links