Variant report

Variant	rs3794099
Chromosome Location	chr11:35295360-35295361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:35279012..35286392-chr11:35294737..35300890,10	MCF-7	breast:
2	chr11:35294411..35297300-chr11:35361479..35363731,2	MCF-7	breast:
3	chr11:35294659..35299259-chr11:35323739..35329418,10	MCF-7	breast:
4	chr11:35279289..35280837-chr11:35295180..35298029,2	MCF-7	breast:
5	chr11:35291446..35293589-chr11:35293877..35296307,2	MCF-7	breast:

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1043101	1.00[CEU][hapmap];0.86[CHD][hapmap];0.98[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10742339	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10742340	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10742341	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10768118	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10768120	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10768121	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10768122	1.00[CEU][hapmap];0.86[CHD][hapmap];0.98[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10768123	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10768126	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10836360	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10836361	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10836362	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10836363	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10836364	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10836367	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10836369	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11033045	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11033046	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11033048	1.00[CEU][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11033052	0.85[YRI][hapmap]
rs11524863	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12361171	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12796856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570214	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570215	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17378105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3088168	1.00[CEU][hapmap];0.86[CHD][hapmap];0.98[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35629461	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3763888	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3794086	0.92[CEU][hapmap];0.82[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3794089	0.96[CEU][hapmap];0.80[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3794090	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3794091	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3794098	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3794100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794101	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794103	1.00[CEU][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3818275	0.85[YRI][hapmap]
rs3847604	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4755394	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4755395	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4756203	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4756204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4756205	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4756206	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57339940	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6484778	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7102949	0.81[YRI][hapmap]
rs7105505	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7105690	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7115246	0.96[YRI][hapmap]
rs7121587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs736374	0.83[EUR][1000 genomes]
rs7946149	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs932633	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs932635	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs957350	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9633870	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv541004	chr11:35122694-35297414	Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	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

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:35265800-35305800	Weak transcription	HepG2	liver
2	chr11:35270400-35296400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr11:35270400-35307000	Weak transcription	Fetal Brain Male	brain
4	chr11:35282200-35297000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr11:35282200-35297000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr11:35282400-35296600	Weak transcription	Aorta	Aorta
7	chr11:35282600-35296800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr11:35283000-35302000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr11:35284600-35296600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr11:35284600-35300800	Weak transcription	Brain Angular Gyrus	brain
11	chr11:35284800-35296600	Weak transcription	Brain Hippocampus Middle	brain
12	chr11:35285800-35308800	Weak transcription	Gastric	stomach
13	chr11:35287600-35296200	Weak transcription	Liver	Liver
14	chr11:35288200-35295600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr11:35288800-35297000	Weak transcription	Brain Germinal Matrix	brain
16	chr11:35289600-35296600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr11:35289800-35296600	Weak transcription	NHDF-Ad	bronchial
18	chr11:35290000-35296800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:35290400-35296000	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr11:35290600-35296800	Weak transcription	NHLF	lung
21	chr11:35291800-35296800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr11:35292600-35295400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr11:35293000-35295600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr11:35293000-35296800	Strong transcription	Fetal Brain Female	brain
25	chr11:35293200-35295600	Enhancers	Primary hematopoietic stem cells	blood
26	chr11:35293200-35296000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr11:35293400-35296000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr11:35293600-35295400	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr11:35293600-35295400	Enhancers	Primary T helper cells PMA-I stimulated	--
30	chr11:35293600-35295400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr11:35293600-35295400	Enhancers	Primary T killer memory cells from peripheral blood	blood
32	chr11:35293600-35296000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
33	chr11:35293800-35295400	Enhancers	Primary T cells fromperipheralblood	blood
34	chr11:35293800-35295400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr11:35293800-35295800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr11:35294200-35295400	Enhancers	Pancreas	Pancrea
37	chr11:35294200-35295800	Weak transcription	Duodenum Mucosa	Duodenum
38	chr11:35294400-35295400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr11:35294600-35295600	Enhancers	Primary T helper naive cells from peripheral blood	blood
40	chr11:35294600-35296200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr11:35294800-35296400	Weak transcription	Brain Anterior Caudate	brain
42	chr11:35295000-35295400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr11:35295000-35295400	Enhancers	GM12878-XiMat	blood
44	chr11:35295000-35297000	Weak transcription	Fetal Thymus	thymus
45	chr11:35295000-35298800	Weak transcription	Esophagus	oesophagus
46	chr11:35295200-35298200	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr11:35295200-35298200	Weak transcription	Monocytes-CD14+_RO01746	blood

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