Variant report

Variant	rs10489402
Chromosome Location	chr1:186746556-186746557
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:186733738..186735467-chr1:186745495..186747169,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10489403	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10489404	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10489405	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10737276	1.00[JPT][hapmap]
rs12239319	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12239324	0.95[EUR][1000 genomes]
rs12239469	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12239842	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13374461	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13375208	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13375339	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1555202	1.00[JPT][hapmap]
rs16825688	1.00[JPT][hapmap]
rs16825875	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16825907	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16825911	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16825915	1.00[EUR][1000 genomes]
rs16825962	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2223310	1.00[JPT][hapmap]
rs2223330	1.00[ASN][1000 genomes]
rs4272579	1.00[JPT][hapmap]
rs4648298	1.00[JPT][hapmap]
rs4650705	1.00[JPT][hapmap]
rs56337220	1.00[EUR][1000 genomes]
rs6656505	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6683363	1.00[JPT][hapmap]
rs6685195	1.00[JPT][hapmap]
rs6688484	1.00[ASN][1000 genomes]
rs6695425	1.00[JPT][hapmap]
rs6696144	0.95[EUR][1000 genomes]
rs689462	1.00[JPT][hapmap]
rs689470	1.00[JPT][hapmap]
rs74134991	1.00[EUR][1000 genomes]
rs74134997	0.95[EUR][1000 genomes]
rs7515232	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs969357	1.00[JPT][hapmap]
rs9970503	1.00[EUR][1000 genomes];1.00[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	nsv466272	chr1:186742947-186803226	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv548406	chr1:186742947-186803226	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186745400-186748600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr1:186745400-186751000	Weak transcription	Fetal Lung	lung
3	chr1:186745600-186748400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr1:186745600-186751000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr1:186745600-186751000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr1:186745600-186751000	Weak transcription	NHEK	skin
7	chr1:186746400-186751000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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