Variant report

Variant	rs12664473
Chromosome Location	chr6:140058258-140058259
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:140049643..140051966-chr6:140056396..140059312,2	K562	blood:
2	chr6:139699348..139700991-chr6:140057749..140059697,2	MCF-7	breast:
3	chr6:140055856..140059094-chr6:140083948..140086975,3	K562	blood:
4	chr6:139694073..139696025-chr6:140057280..140060113,2	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10499213	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10499214	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11962730	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963532	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11964275	1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12055436	0.82[CHB][hapmap];0.81[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12055472	0.81[CHB][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs12055843	0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12662206	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069206	0.81[JPT][hapmap]
rs17069225	0.88[CHB][hapmap];0.81[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1891808	0.86[AFR][1000 genomes]
rs1936210	0.89[ASN][1000 genomes]
rs1936214	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2096283	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2096284	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2154032	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2185923	0.88[ASN][1000 genomes]
rs2327993	0.88[ASN][1000 genomes]
rs4520026	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4535566	0.86[ASN][1000 genomes]
rs55764205	0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs55966840	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs60350063	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60758082	0.88[ASN][1000 genomes]
rs6570372	0.89[ASN][1000 genomes]
rs6570373	0.90[ASN][1000 genomes]
rs6570374	0.89[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs6901783	0.87[JPT][hapmap]
rs6905478	1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6933318	0.87[JPT][hapmap]
rs73556090	0.88[ASN][1000 genomes]
rs73558032	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7743796	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7752001	0.89[CHB][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs7752323	0.89[ASN][1000 genomes]
rs7756866	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7769567	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7774968	1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9321752	0.88[ASN][1000 genomes]
rs9373246	0.84[CHB][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs9373247	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373248	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376452	0.81[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs9376457	0.89[ASN][1000 genomes]
rs9376466	0.81[EUR][1000 genomes]
rs9385874	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9385875	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9385876	0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs9389715	0.89[ASN][1000 genomes]
rs9389717	0.88[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs9399292	0.81[JPT][hapmap]
rs9403113	0.88[ASN][1000 genomes]
rs9403114	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9403115	1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9403116	0.94[CHB][hapmap];0.93[JPT][hapmap];0.99[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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv464065	chr6:140027836-140085873	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv604766	chr6:140027836-140085873	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140054200-140059600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr6:140054400-140059600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:140054400-140059800	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr6:140054400-140059800	Weak transcription	NHDF-Ad	bronchial
5	chr6:140054800-140072000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:140055000-140064600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:140057600-140059400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links