Variant report

Variant	rs3846921
Chromosome Location	chr6:56036286-56036287
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs1022539	0.92[JPT][hapmap]
rs1033478	0.84[CEU][hapmap];0.93[JPT][hapmap]
rs1205109	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12199712	0.93[JPT][hapmap]
rs12199742	0.92[JPT][hapmap]
rs1319112	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13193925	0.84[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap]
rs13209836	0.90[JPT][hapmap]
rs1480	0.95[CEU][hapmap];0.82[CHB][hapmap]
rs1555097	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1925138	0.86[EUR][1000 genomes]
rs1925141	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1925143	0.93[JPT][hapmap]
rs1925147	0.87[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1925149	0.92[JPT][hapmap]
rs1925177	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1925179	0.95[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1925180	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1925181	0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1925185	0.81[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap]
rs1925186	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1925189	0.93[JPT][hapmap]
rs1980487	0.92[JPT][hapmap]
rs2038149	0.92[JPT][hapmap]
rs2206674	0.96[CEU][hapmap];0.92[JPT][hapmap]
rs2328677	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2397204	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2397206	0.86[EUR][1000 genomes]
rs2397208	0.84[JPT][hapmap]
rs2745366	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2764046	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs2764048	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2764052	0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs2764055	0.83[EUR][1000 genomes]
rs2764056	0.83[EUR][1000 genomes]
rs2764059	0.81[EUR][1000 genomes]
rs2840989	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2840990	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2840995	0.84[EUR][1000 genomes]
rs2841000	0.87[CEU][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs2841006	0.96[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes]
rs2841007	0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs3817983	0.96[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap]
rs3846918	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3846920	0.96[CEU][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes]
rs3846922	0.92[JPT][hapmap]
rs3846923	0.93[JPT][hapmap]
rs3846924	0.92[JPT][hapmap]
rs3857611	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3857612	0.93[JPT][hapmap]
rs3996940	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4119567	0.92[JPT][hapmap]
rs4126558	0.93[JPT][hapmap]
rs4379279	0.96[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes]
rs4495274	0.92[JPT][hapmap]
rs4573075	0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.80[EUR][1000 genomes]
rs4596475	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4599643	0.91[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap]
rs4712113	0.81[CEU][hapmap];0.91[CHB][hapmap];0.89[JPT][hapmap]
rs4715585	0.93[JPT][hapmap]
rs4715591	0.87[CEU][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes]
rs4715592	0.85[EUR][1000 genomes]
rs4715597	0.88[CEU][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6459124	0.81[EUR][1000 genomes]
rs6459127	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6459128	0.93[JPT][hapmap]
rs6459136	0.92[JPT][hapmap]
rs66585712	0.84[AFR][1000 genomes]
rs6909268	0.86[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914495	0.92[JPT][hapmap]
rs6927919	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6933151	0.93[JPT][hapmap]
rs6939465	0.93[JPT][hapmap]
rs6939632	0.83[EUR][1000 genomes]
rs7774374	0.92[CEU][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9296828	0.96[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap]
rs9296830	0.82[CHB][hapmap];0.84[JPT][hapmap]
rs9357891	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9370485	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs9370486	0.93[JPT][hapmap]
rs9370493	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9382583	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9382595	0.93[JPT][hapmap]
rs9396176	0.88[CHB][hapmap];0.86[JPT][hapmap]
rs9475593	0.93[JPT][hapmap]
rs9475621	0.92[JPT][hapmap]
rs994667	0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.87[AMR][1000 genomes];0.99[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	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv885911	chr6:55789704-56143231	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 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	chr6:55984000-56037000	Weak transcription	Fetal Kidney	kidney
2	chr6:56013000-56036400	Weak transcription	Colon Smooth Muscle	Colon
3	chr6:56021800-56036800	Weak transcription	Placenta	Placenta
4	chr6:56021800-56053200	Weak transcription	Aorta	Aorta
5	chr6:56034400-56036800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:56035400-56038200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:56035800-56036800	Weak transcription	Fetal Lung	lung

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