Variant report

Variant	rs10485539
Chromosome Location	chr20:15687258-15687259
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10485538	0.80[CHD][hapmap];0.82[ASN][1000 genomes]
rs16996387	0.82[CHB][hapmap];0.80[CHD][hapmap]
rs6034260	0.90[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];0.89[JPT][hapmap]
rs6034263	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6034266	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6034267	0.90[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6034268	1.00[ASW][hapmap];0.95[CEU][hapmap];0.89[CHB][hapmap];0.85[CHD][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap]
rs6034270	0.95[CEU][hapmap];0.89[CHB][hapmap];0.85[CHD][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6043447	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs6043448	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs6043451	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6043455	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6043458	0.87[ASN][1000 genomes]
rs6043462	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6043464	0.95[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6043465	0.95[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6043470	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6043472	0.82[TSI][hapmap]
rs6105454	0.89[CEU][hapmap]
rs6110746	0.89[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6110747	0.90[CEU][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6514600	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7261305	0.90[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap]
rs7269188	0.87[ASN][1000 genomes]
rs7269539	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73614424	0.82[ASN][1000 genomes]
rs73614426	0.82[ASN][1000 genomes]
rs73614433	0.87[ASN][1000 genomes]
rs73614434	0.87[ASN][1000 genomes]
rs73614435	0.86[ASN][1000 genomes]
rs73614442	0.86[ASN][1000 genomes]
rs73614443	0.86[ASN][1000 genomes]
rs73614444	0.86[ASN][1000 genomes]
rs73614447	0.87[ASN][1000 genomes]
rs73614449	0.87[ASN][1000 genomes]
rs73614451	0.87[ASN][1000 genomes]
rs73614452	0.80[ASN][1000 genomes]
rs8118174	0.87[ASN][1000 genomes]
rs8118398	0.82[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs8118408	0.82[CHB][hapmap];0.83[CHD][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs8119565	0.82[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs8125672	0.82[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap]

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	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv833928	chr20:15619962-15780758	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv3303	chr20:15656109-15700969	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15680000-15692400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr20:15683600-15688200	Enhancers	HUVEC	blood vessel
3	chr20:15684800-15687400	Weak transcription	HMEC	breast
4	chr20:15684800-15687600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr20:15685400-15687800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr20:15686800-15687800	Enhancers	Osteobl	bone
7	chr20:15687000-15688000	Enhancers	NHEK	skin
8	chr20:15687200-15687800	Enhancers	Muscle Satellite Cultured Cells	--

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