Variant report

Variant	rs6665436
Chromosome Location	chr1:85532894-85532895
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10443172	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs11585722	0.81[ASN][1000 genomes]
rs12024977	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12028736	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12030730	0.93[JPT][hapmap]
rs12030837	0.84[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12037219	0.91[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12041012	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12042160	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1371140	0.92[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap]
rs1371143	0.92[CEU][hapmap];0.92[JPT][hapmap]
rs2028304	0.92[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap]
rs2083283	0.92[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap]
rs2304641	0.93[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs2840050	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61768854	0.89[EUR][1000 genomes]
rs61769366	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61770879	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6672362	0.85[CEU][hapmap]
rs6679539	0.92[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap]
rs6688354	0.92[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6690464	0.93[CHB][hapmap];0.86[JPT][hapmap]
rs6690583	0.93[CHB][hapmap];0.86[JPT][hapmap]
rs6700723	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7522239	0.92[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap]
rs7540706	0.92[CEU][hapmap];0.86[CHB][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7547224	0.92[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes]
rs7547317	0.92[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes]
rs893618	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs898036	0.92[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470724	chr1:85334788-85585260	Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv462383	chr1:85334788-85594466	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv546700	chr1:85334788-85594466	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv947434	chr1:85334915-85594135	Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 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	chr1:85529200-85539600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr1:85529600-85552400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:85530000-85539600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:85532800-85533000	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr1:85532800-85533400	Enhancers	HUES48 Cell Line	embryonic stem cell

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