Variant report

Variant	rs6113585
Chromosome Location	chr20:22207765-22207766
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:22207148..22209709-chr20:22210226..22212970,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FOXA2-14	chr20:22205059-22209178	ucscGeneNc_uc002wsk_1

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1090292	0.85[ASN][1000 genomes]
rs1090293	0.85[ASN][1000 genomes]
rs1159466	0.84[ASN][1000 genomes]
rs12625314	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12625315	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1337906	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1337907	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1337908	0.88[AFR][1000 genomes]
rs1415801	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1569782	0.86[AFR][1000 genomes]
rs28657921	0.92[AFR][1000 genomes]
rs2876633	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4813451	0.84[AFR][1000 genomes]
rs4813452	0.84[AFR][1000 genomes]
rs4815098	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4815099	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082642	0.83[ASN][1000 genomes]
rs6106481	0.90[AFR][1000 genomes]
rs6113583	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6113624	0.84[AFR][1000 genomes]
rs6137582	0.96[AFR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62202797	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62202800	0.92[AFR][1000 genomes]
rs709005	0.85[ASN][1000 genomes]
rs709006	0.85[ASN][1000 genomes]
rs709007	0.85[ASN][1000 genomes]
rs742655	0.84[ASN][1000 genomes]
rs804609	0.84[ASN][1000 genomes]
rs804610	0.97[ASN][1000 genomes]
rs804612	0.83[ASN][1000 genomes]
rs804614	0.84[ASN][1000 genomes]
rs804615	0.84[ASN][1000 genomes]
rs804616	0.84[ASN][1000 genomes]
rs804617	0.85[ASN][1000 genomes]
rs804618	0.85[ASN][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	nsv1058137	chr20:21549350-22295051	Weak transcription Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1065067	chr20:22199617-22240462	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22207400-22207800	Enhancers	Fetal Muscle Leg	muscle
2	chr20:22207400-22207800	Enhancers	GM12878-XiMat	blood
3	chr20:22207400-22208000	Enhancers	HSMM	muscle
4	chr20:22207400-22208600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr20:22207600-22207800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links