Variant report

Variant	rs1947689
Chromosome Location	chr3:115920323-115920324
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10511355	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12631840	0.98[ASN][1000 genomes]
rs12631903	0.98[ASN][1000 genomes]
rs13078076	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs1461114	0.90[ASN][1000 genomes]
rs1461116	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap]
rs1461132	0.95[ASN][1000 genomes]
rs1461134	0.94[ASN][1000 genomes]
rs1468001	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1468003	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2864074	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2864075	0.95[ASN][1000 genomes]
rs4831123	1.00[CEU][hapmap]
rs56138725	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6438299	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs6438300	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6438303	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6438304	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6792060	0.95[ASN][1000 genomes]
rs6807792	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7618443	0.95[ASN][1000 genomes]
rs7629590	0.88[CHB][hapmap]
rs7638493	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7640143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7641198	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7644082	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9812548	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs9818695	0.88[CHB][hapmap]
rs9826725	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9834017	0.98[ASN][1000 genomes]
rs9834315	0.98[ASN][1000 genomes]
rs9834589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9834897	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9835757	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs9870541	0.88[CHB][hapmap];0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs9875609	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs998806	0.97[ASN][1000 genomes]
rs998807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][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	nsv1012260	chr3:115680931-115935968	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv2755046	chr3:115818840-115942952	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv877360	chr3:115916171-116023990	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115919400-115921000	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr3:115919400-115921000	Enhancers	Brain Substantia Nigra	brain
3	chr3:115919400-115921400	Enhancers	Brain Inferior Temporal Lobe	brain
4	chr3:115919600-115920400	Enhancers	Brain Germinal Matrix	brain
5	chr3:115919600-115920800	Enhancers	Brain Anterior Caudate	brain
6	chr3:115919600-115920800	Enhancers	Fetal Brain Female	brain
7	chr3:115919600-115921000	Enhancers	Brain Cingulate Gyrus	brain
8	chr3:115919800-115920400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:115919800-115920400	Enhancers	Fetal Brain Male	brain
10	chr3:115919800-115921600	Enhancers	Brain Angular Gyrus	brain
11	chr3:115920200-115920600	Enhancers	Brain Hippocampus Middle	brain
12	chr3:115920200-115921400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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