Variant report

Variant	rs12115775
Chromosome Location	chr9:108168531-108168532
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10114564	1.00[GIH][hapmap]
rs10118989	1.00[TSI][hapmap]
rs11506819	1.00[TSI][hapmap]
rs12335407	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs12335408	0.82[EUR][1000 genomes]
rs12335518	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12338806	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12343676	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12346049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12348331	1.00[GIH][hapmap]
rs13285648	1.00[TSI][hapmap]
rs13295239	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs13297766	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs13301941	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs16924583	1.00[GIH][hapmap]
rs16924597	1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[LWK][hapmap];0.82[MEX][hapmap];0.94[MKK][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16924617	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs16924620	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28425173	0.94[EUR][1000 genomes]
rs28848179	1.00[EUR][1000 genomes]
rs34310266	0.94[EUR][1000 genomes]
rs34412410	1.00[EUR][1000 genomes]
rs35754489	0.94[EUR][1000 genomes]
rs4394455	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6477441	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6477443	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6477444	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7025543	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7027252	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7034136	1.00[TSI][hapmap]
rs7048586	1.00[TSI][hapmap]
rs71494531	1.00[EUR][1000 genomes]
rs71494532	1.00[EUR][1000 genomes]
rs7467335	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7855200	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7856524	1.00[TSI][hapmap]
rs7872853	0.82[AMR][1000 genomes];0.84[EUR][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	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1037750	chr9:108027692-108251733	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108146800-108177600	Weak transcription	Left Ventricle	heart
2	chr9:108155400-108172600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr9:108165600-108170000	Enhancers	Dnd41	blood
4	chr9:108166200-108169400	Weak transcription	Brain Anterior Caudate	brain
5	chr9:108166200-108171600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr9:108166600-108169000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
7	chr9:108167000-108168600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr9:108167000-108168600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr9:108167000-108168800	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr9:108167000-108168800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
11	chr9:108167000-108168800	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr9:108167000-108172600	Weak transcription	Brain Hippocampus Middle	brain
13	chr9:108167200-108169000	Enhancers	Fetal Thymus	thymus
14	chr9:108167200-108173800	Weak transcription	Brain Substantia Nigra	brain
15	chr9:108167400-108169000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr9:108167400-108174000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr9:108167600-108168600	Enhancers	Primary hematopoietic stem cells	blood
18	chr9:108167600-108168600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr9:108167600-108168800	Enhancers	HepG2	liver
20	chr9:108167800-108168600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:108167800-108168600	Enhancers	HUVEC	blood vessel
22	chr9:108167800-108168800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
23	chr9:108168000-108168600	Enhancers	Primary B cells from peripheral blood	blood
24	chr9:108168000-108168600	Flanking Active TSS	Thymus	Thymus
25	chr9:108168000-108168600	Flanking Active TSS	GM12878-XiMat	blood
26	chr9:108168000-108168600	Enhancers	NH-A	brain
27	chr9:108168200-108168600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr9:108168200-108168800	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
29	chr9:108168400-108168600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
30	chr9:108168400-108168800	Enhancers	Primary T helper naive cells from peripheral blood	blood
31	chr9:108168400-108168800	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr9:108168400-108169000	Enhancers	Primary T cells from cord blood	blood
33	chr9:108168400-108169000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
34	chr9:108168400-108171600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr9:108168400-108174000	Weak transcription	Fetal Heart	heart

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