Variant report

Variant	rs1522393
Chromosome Location	chr3:157028417-157028418
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:157022820..157026060-chr3:157027403..157031164,3	K562	blood:
2	chr3:157027546..157030155-chr3:157033829..157035547,2	K562	blood:
3	chr3:157026538..157029095-chr3:157332421..157334094,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10755111	0.91[MEX][hapmap];0.83[TSI][hapmap]
rs10936077	0.91[MEX][hapmap];0.85[TSI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10936079	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12486155	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12486955	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12490120	0.82[EUR][1000 genomes]
rs12494423	0.82[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12633099	0.81[EUR][1000 genomes]
rs12636252	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1392798	0.86[CHB][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.85[TSI][hapmap];0.83[ASN][1000 genomes]
rs1403105	0.91[MEX][hapmap];0.83[TSI][hapmap]
rs1403109	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1500921	0.83[ASN][1000 genomes]
rs1500923	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1546260	0.91[MEX][hapmap];0.83[TSI][hapmap];0.82[EUR][1000 genomes]
rs1566521	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1581413	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2321743	0.91[MEX][hapmap];0.83[TSI][hapmap]
rs34263112	0.98[ASN][1000 genomes]
rs4680353	0.91[MEX][hapmap];0.83[TSI][hapmap]
rs55734537	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62278578	0.83[ASN][1000 genomes]
rs62278580	0.82[ASN][1000 genomes]
rs62281378	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73156724	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73156728	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7636413	0.87[MEX][hapmap]
rs7642909	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs991083	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877687	chr3:156924793-157044184	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1522393	SSR3	cis	cerebellum	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:157013000-157032600	Weak transcription	NH-A	brain
2	chr3:157015600-157048400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr3:157019000-157029000	Weak transcription	NHLF	lung
4	chr3:157021800-157035400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:157024200-157028600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:157028000-157030600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:157028200-157029000	Strong transcription	HUVEC	blood vessel
8	chr3:157028200-157029400	Enhancers	NHDF-Ad	bronchial
9	chr3:157028200-157030000	Enhancers	Muscle Satellite Cultured Cells	--
10	chr3:157028200-157030600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:157028200-157030800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:157028400-157028600	Enhancers	Osteobl	bone
13	chr3:157028400-157029200	Enhancers	Fetal Muscle Leg	muscle
14	chr3:157028400-157029600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:157028400-157030600	Enhancers	Hela-S3	cervix

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