Variant report

Variant	rs2477953
Chromosome Location	chr10:90268614-90268615
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	chr10:89621134..89622891-chr10:90266765..90269428,2	MCF-7	breast:
2	chr10:90266844..90269778-chr10:90274233..90275948,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171862	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10509547	0.95[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10509548	0.95[CEU][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10509549	0.95[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10509550	0.95[CEU][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10736359	1.00[CEU][hapmap]
rs1169042	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11816967	0.90[CEU][hapmap];0.89[AMR][1000 genomes]
rs1325899	0.95[CEU][hapmap]
rs1325901	0.91[CEU][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1325904	1.00[CEU][hapmap]
rs1342457	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1359581	0.94[CEU][hapmap]
rs1359582	0.95[CEU][hapmap]
rs1555839	0.80[CEU][hapmap]
rs1573074	0.95[CEU][hapmap];0.89[AMR][1000 genomes]
rs17334741	0.82[CEU][hapmap];0.87[AMR][1000 genomes]
rs17336288	0.95[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17426488	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1774977	0.82[CEU][hapmap];0.87[AMR][1000 genomes]
rs1974053	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2437876	0.95[CEU][hapmap];1.00[YRI][hapmap]
rs2576158	1.00[CEU][hapmap]
rs2576162	0.95[CEU][hapmap]
rs2576163	0.95[CEU][hapmap]
rs2576173	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2576175	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2576177	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2765451	0.94[CEU][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2765453	0.95[CEU][hapmap]
rs2765457	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57260181	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs792201	0.91[CEU][hapmap];0.89[AMR][1000 genomes]
rs792202	0.89[AMR][1000 genomes]
rs792203	0.89[AMR][1000 genomes]
rs792231	0.86[CEU][hapmap];0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv825500	chr10:90221443-90302503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv533167	chr10:90236197-90341481	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv430254	chr10:90265420-90500520	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 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	chr10:90260400-90277600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr10:90265800-90269000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:90266600-90268800	Enhancers	Brain Germinal Matrix	brain
4	chr10:90266600-90269000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:90266600-90269000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr10:90266600-90269000	Enhancers	Fetal Lung	lung
7	chr10:90268600-90269600	Enhancers	iPS-18 Cell Line	embryonic stem cell

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