Variant report

Variant	rs28469836
Chromosome Location	chr1:186708903-186708904
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:186677076..186679314-chr1:186708413..186710539,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10911903	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10911907	0.94[EUR][1000 genomes]
rs10911908	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10911909	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10911910	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10911911	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10911918	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs1119066	0.80[EUR][1000 genomes]
rs1119230	0.94[EUR][1000 genomes]
rs1119231	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11583191	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11584118	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12064238	0.80[EUR][1000 genomes]
rs12084433	0.80[EUR][1000 genomes]
rs12089049	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12401885	0.98[EUR][1000 genomes]
rs12403185	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12405141	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12405541	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12405919	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2066826	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2143416	0.80[EUR][1000 genomes]
rs2143417	0.80[EUR][1000 genomes]
rs2179555	0.94[EUR][1000 genomes]
rs2383515	0.80[EUR][1000 genomes]
rs2383516	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4422959	0.80[EUR][1000 genomes]
rs4648250	0.81[ASN][1000 genomes]
rs4648276	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4648306	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs60203808	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60502777	0.81[EUR][1000 genomes]
rs61532952	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs66494422	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6665419	0.94[EUR][1000 genomes]
rs6666199	0.97[EUR][1000 genomes]
rs67804662	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs68096880	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs689465	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72721568	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7533973	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs964571	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9783017	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	esv2762854	chr1:186547101-186847574	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv872590	chr1:186557453-187500338	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv466261	chr1:186652395-186742947	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv548405	chr1:186652395-186742947	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186704200-186709400	Enhancers	HMEC	breast
2	chr1:186706800-186709400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr1:186708000-186709400	Enhancers	NHEK	skin
4	chr1:186708000-186710200	Enhancers	GM12878-XiMat	blood
5	chr1:186708400-186709000	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr1:186708400-186709600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links