Variant report

Variant	rs6425035
Chromosome Location	chr1:186545717-186545718
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	chr1:186488450..186491951-chr1:186545141..186547515,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000273198	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10798051	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10911877	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10911878	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10911880	0.86[AFR][1000 genomes]
rs10911888	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911890	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10911892	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10911895	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11580808	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11582183	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11801617	0.82[ASN][1000 genomes]
rs11805124	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12081060	0.86[AFR][1000 genomes]
rs12087470	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12093901	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12096518	0.86[AFR][1000 genomes]
rs12402521	0.82[AMR][1000 genomes]
rs12728706	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12750371	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1799957	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1929092	0.82[AMR][1000 genomes]
rs2024761	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2180167	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2207727	0.83[AMR][1000 genomes]
rs2383508	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34396375	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34578387	0.81[ASN][1000 genomes]
rs35643079	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs36053737	0.81[ASN][1000 genomes]
rs36105782	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3844242	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3901950	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4140433	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4567244	0.82[AMR][1000 genomes]
rs59547074	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6659683	0.82[AMR][1000 genomes]
rs6666413	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6666813	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6672836	0.82[AMR][1000 genomes]
rs6677346	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680252	0.82[AMR][1000 genomes]
rs6689065	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6689727	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6694957	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7518525	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7536199	0.82[AMR][1000 genomes]
rs7556360	0.82[AMR][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	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	nsv1012164	chr1:186323867-186565995	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	esv2762201	chr1:186323879-186566007	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv832059	chr1:186464932-186639125	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186541000-186546200	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr1:186543600-186545800	Enhancers	HUVEC	blood vessel
3	chr1:186544000-186546400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr1:186544200-186545800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr1:186544200-186546200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr1:186544600-186546400	Enhancers	Adipose Nuclei	Adipose
7	chr1:186544800-186546400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:186545000-186546200	Weak transcription	HMEC	breast
9	chr1:186545200-186546000	Enhancers	Gastric	stomach
10	chr1:186545200-186546200	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr1:186545400-186545800	Weak transcription	Hela-S3	cervix
12	chr1:186545400-186546200	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr1:186545400-186548000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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