Variant report

Variant	rs56230831
Chromosome Location	chr3:161065728-161065729
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	chr3:160936570..160938088-chr3:161064892..161066520,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12631095	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12631808	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12632351	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12632514	1.00[EUR][1000 genomes]
rs12632537	0.85[AFR][1000 genomes]
rs12632632	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12632686	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12634006	0.84[ASN][1000 genomes]
rs12634781	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12635895	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12639236	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16832385	1.00[EUR][1000 genomes]
rs2404345	1.00[EUR][1000 genomes]
rs55914832	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56378191	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57175632	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57212203	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58013864	1.00[EUR][1000 genomes]
rs58404146	1.00[EUR][1000 genomes]
rs58550445	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59761692	0.84[ASN][1000 genomes]
rs60172527	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61217744	0.84[ASN][1000 genomes]
rs61631170	1.00[EUR][1000 genomes]
rs72494862	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72494864	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73021435	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73875481	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73875497	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73875623	1.00[EUR][1000 genomes]
rs73878306	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73878307	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs73878308	0.84[ASN][1000 genomes]
rs73878311	0.84[ASN][1000 genomes]
rs73878333	1.00[EUR][1000 genomes]
rs73878336	1.00[EUR][1000 genomes]
rs873183	0.84[ASN][1000 genomes]
rs896080	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	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
4	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:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161058200-161072200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr3:161058400-161067000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:161059800-161089200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:161060600-161070200	Weak transcription	Esophagus	oesophagus
5	chr3:161062200-161067400	Weak transcription	Gastric	stomach
6	chr3:161062600-161067600	Weak transcription	HepG2	liver
7	chr3:161063200-161067000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:161063200-161067200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr3:161063600-161066000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:161064400-161067000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:161064400-161083000	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr3:161065400-161069200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr3:161065600-161068200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr3:161065600-161069000	Enhancers	NHDF-Ad	bronchial

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