Variant report

Variant	rs6474977
Chromosome Location	chr9:15836848-15836849
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15836820..15837651-chr9:16133566..16134324,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10429512	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10756706	1.00[YRI][hapmap];0.92[AMR][1000 genomes]
rs10810445	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1081244	1.00[ASN][1000 genomes]
rs1081246	1.00[ASN][1000 genomes]
rs1081247	1.00[ASN][1000 genomes]
rs10962172	0.85[EUR][1000 genomes]
rs1169469	1.00[YRI][hapmap]
rs1169471	1.00[YRI][hapmap]
rs1169472	1.00[YRI][hapmap]
rs1184568	1.00[YRI][hapmap]
rs1341739	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs1355172	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1361608	1.00[ASN][1000 genomes]
rs1417975	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1417976	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1472941	0.83[GIH][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap]
rs1553727	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs1572977	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1578556	1.00[ASN][1000 genomes]
rs16933738	0.84[EUR][1000 genomes]
rs1773046	1.00[ASN][1000 genomes]
rs1832818	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1954220	0.89[AFR][1000 genomes]
rs2055774	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs2105320	1.00[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2153724	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2382536	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs4146288	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4146289	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4741532	0.85[YRI][hapmap]
rs4741537	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs4741544	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6474941	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6474947	0.86[YRI][hapmap]
rs6474949	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6474957	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6474973	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6474976	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6474978	1.00[ASN][1000 genomes]
rs6474979	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs7027040	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035422	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7468716	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs770190	1.00[ASN][1000 genomes]
rs770193	1.00[CHD][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs770195	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs770196	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs770197	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs7852250	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7860463	1.00[ASN][1000 genomes]
rs7865141	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870315	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9406543	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9406544	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9406546	1.00[ASN][1000 genomes]
rs955193	0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9919009	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv892632	chr9:15590116-15869845	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv892633	chr9:15604746-15889411	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv892635	chr9:15731775-15876507	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv528964	chr9:15760822-15875162	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv892636	chr9:15794858-15876507	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv6486	chr9:15805220-15837639	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv613666	chr9:15823667-15875162	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv613667	chr9:15823667-15876507	Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 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	chr9:15830200-15857200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:15835000-15846600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:15835200-15843400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links