Variant report

Variant	rs10504158
Chromosome Location	chr8:54772934-54772935
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:54751393..54753294-chr8:54771341..54773582,2	MCF-7	breast:
2	chr8:54768719..54770516-chr8:54771560..54774464,2	K562	blood:

Variant related genes	Relation type
ENSG00000047249	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1004228	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1031980	0.82[YRI][hapmap]
rs10435587	0.82[YRI][hapmap]
rs11985729	0.85[ASN][1000 genomes]
rs1384797	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1483538	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1483539	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1483540	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1483542	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16919508	0.82[YRI][hapmap]
rs16919563	0.83[YRI][hapmap]
rs16919616	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1842982	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1842983	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1842984	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1872063	0.82[YRI][hapmap]
rs2062226	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2306584	0.94[EUR][1000 genomes]
rs2306585	0.82[ASN][1000 genomes]
rs3757954	0.83[YRI][hapmap]
rs3824121	1.00[CEU][hapmap]
rs4236945	0.82[YRI][hapmap]
rs4518622	0.96[ASN][1000 genomes]
rs4737764	0.82[YRI][hapmap]
rs57546155	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57553178	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58652215	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60696924	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60819522	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61194604	0.86[ASN][1000 genomes]
rs61231337	0.84[ASN][1000 genomes]
rs61433056	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6473894	1.00[CEU][hapmap]
rs6988009	0.92[YRI][hapmap]
rs6988808	0.82[YRI][hapmap]
rs6994332	0.86[ASN][1000 genomes]
rs6997050	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6998532	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7016171	0.86[ASN][1000 genomes]
rs7017291	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7017967	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73680325	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73680341	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73680342	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73680346	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7827611	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7831399	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7843701	0.82[YRI][hapmap]
rs7846259	1.00[CEU][hapmap];0.89[YRI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs958268	0.83[YRI][hapmap]
rs9643819	0.80[YRI][hapmap]

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	nsv1021775	chr8:54631303-54827173	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv539621	chr8:54631303-54827173	Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:54759200-54780200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr8:54771600-54773000	Weak transcription	NHEK	skin
3	chr8:54772600-54773000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links