Variant report

Variant	rs2477954
Chromosome Location	chr10:90264140-90264141
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	chr10:90253538..90255456-chr10:90264130..90266420,2	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1067839	0.90[AMR][1000 genomes]
rs1067840	0.90[AMR][1000 genomes]
rs10736351	0.93[AMR][1000 genomes]
rs10736352	0.93[AMR][1000 genomes]
rs10736354	0.85[AMR][1000 genomes]
rs10749589	0.93[AMR][1000 genomes]
rs10749590	0.96[AMR][1000 genomes]
rs10749591	0.96[AMR][1000 genomes]
rs10788598	0.90[AMR][1000 genomes]
rs10788599	0.90[AMR][1000 genomes]
rs10788600	0.90[AMR][1000 genomes]
rs10788602	0.93[AMR][1000 genomes]
rs10887821	0.90[AMR][1000 genomes]
rs10887823	0.96[AMR][1000 genomes]
rs10887824	0.96[AMR][1000 genomes]
rs1169043	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1342450	0.96[AMR][1000 genomes]
rs1342456	0.96[AMR][1000 genomes]
rs1750274	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1935579	0.96[AMR][1000 genomes]
rs1935584	0.89[AMR][1000 genomes]
rs2096194	0.94[AMR][1000 genomes]
rs2185786	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2209553	0.84[AMR][1000 genomes]
rs2312610	0.96[AMR][1000 genomes]
rs2437875	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2477956	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576159	0.84[AMR][1000 genomes]
rs2576169	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576170	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576171	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576172	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576181	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765454	0.85[AMR][1000 genomes]
rs2765456	0.88[AMR][1000 genomes]
rs2872092	0.93[AMR][1000 genomes]
rs4509673	0.93[AMR][1000 genomes]
rs4596981	0.93[AMR][1000 genomes]
rs4606392	0.96[AMR][1000 genomes]
rs4619060	0.93[AMR][1000 genomes]
rs4934404	0.90[AMR][1000 genomes]
rs4934409	0.96[AMR][1000 genomes]
rs4934411	0.93[AMR][1000 genomes]
rs6586139	0.96[AMR][1000 genomes]
rs7899828	0.96[AMR][1000 genomes]
rs7909697	0.93[AMR][1000 genomes]
rs7910594	0.90[AMR][1000 genomes]
rs7911996	0.90[AMR][1000 genomes]
rs7921352	0.86[AMR][1000 genomes]
rs792208	0.90[AMR][1000 genomes]
rs792211	0.89[AMR][1000 genomes]
rs792214	0.89[AMR][1000 genomes]
rs792215	0.90[AMR][1000 genomes]
rs792235	0.89[AMR][1000 genomes]
rs7922551	0.93[AMR][1000 genomes]
rs806694	0.89[AMR][1000 genomes]
rs813782	0.89[AMR][1000 genomes]
rs814242	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90258200-90267200	Weak transcription	Adipose Nuclei	Adipose
2	chr10:90260200-90264800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr10:90260200-90265000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr10:90260400-90264800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr10:90260400-90265000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr10:90260400-90266600	Weak transcription	Fetal Lung	lung
7	chr10:90260400-90277600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr10:90263800-90265800	Enhancers	H1 Cell Line	embryonic stem cell
9	chr10:90263800-90266200	Enhancers	iPS-18 Cell Line	embryonic stem cell

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