Variant report

Variant	rs58562874
Chromosome Location	chr3:161051176-161051177
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	chr3:160941286..160943781-chr3:161049353..161051751,2	MCF-7	breast:
2	chr3:160992262..160994314-chr3:161049627..161053017,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169251	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10513566	0.86[ASN][1000 genomes]
rs12632537	0.87[EUR][1000 genomes]
rs12634006	0.95[EUR][1000 genomes]
rs16832203	0.84[EUR][1000 genomes]
rs17418895	0.86[ASN][1000 genomes]
rs28713364	0.86[EUR][1000 genomes]
rs36015194	0.86[EUR][1000 genomes]
rs57278490	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57496534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57803909	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57916312	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57974280	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs58350275	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58557417	0.84[EUR][1000 genomes]
rs58878734	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59371901	0.86[EUR][1000 genomes]
rs59541314	0.87[EUR][1000 genomes]
rs59686054	0.86[ASN][1000 genomes]
rs59761692	0.95[EUR][1000 genomes]
rs59777031	0.86[ASN][1000 genomes]
rs59964190	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60400555	0.87[EUR][1000 genomes]
rs60612225	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60684226	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60866328	0.86[EUR][1000 genomes]
rs61048679	0.86[ASN][1000 genomes]
rs61217744	0.95[EUR][1000 genomes]
rs6788738	0.86[EUR][1000 genomes]
rs6798468	0.86[EUR][1000 genomes]
rs73023224	0.86[EUR][1000 genomes]
rs73878307	0.95[EUR][1000 genomes]
rs73878308	0.95[EUR][1000 genomes]
rs73878311	0.95[EUR][1000 genomes]
rs73878313	0.87[EUR][1000 genomes]
rs73878321	0.87[EUR][1000 genomes]
rs73878322	0.87[EUR][1000 genomes]
rs73878324	0.87[EUR][1000 genomes]
rs73878325	0.87[EUR][1000 genomes]
rs73878328	0.87[EUR][1000 genomes]
rs7625217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs873183	0.95[EUR][1000 genomes]
rs896080	0.95[EUR][1000 genomes]
rs9834806	0.86[EUR][1000 genomes]
rs9839335	1.00[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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv4091	chr3:161018540-161063875	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
5	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 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	chr3:161048200-161051800	Enhancers	HepG2	liver
2	chr3:161050600-161052200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:161050800-161051800	Enhancers	Primary hematopoietic stem cells	blood
4	chr3:161050800-161052000	Enhancers	Adipose Nuclei	Adipose
5	chr3:161051000-161052200	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr3:161051000-161052400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:161051000-161052400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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