Variant report

Variant	rs16966232
Chromosome Location	chr15:53872437-53872438
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	chr15:53871923..53873641-chr6:41038480..41041425,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000001167	Chromatin interaction
ENSG00000124596	Chromatin interaction

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10518730	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437669	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439465	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439520	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439540	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439608	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439700	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441277	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12442549	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966231	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966247	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966254	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966257	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966258	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966261	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966270	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966272	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966273	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966274	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966276	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966278	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966280	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966282	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966284	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966301	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966302	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966304	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16966308	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17662369	0.87[AMR][1000 genomes]
rs17662393	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs1906396	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1906398	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1906399	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1906442	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2414244	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2414247	1.00[ASN][1000 genomes]
rs35968624	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4457943	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4468551	1.00[ASN][1000 genomes]
rs55799724	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55933865	0.87[AMR][1000 genomes]
rs56007818	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56276502	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56771214	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57388125	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs58124844	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59074347	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59125438	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59287715	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59627084	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60027343	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60909239	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61301076	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61355899	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61554251	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164313	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165282	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165440	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7170810	1.00[ASN][1000 genomes]
rs7171176	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171226	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171619	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171820	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171915	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7172085	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7172090	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7172762	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7173966	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408216	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408217	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408222	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408230	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408236	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408239	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74015825	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74017460	0.93[AMR][1000 genomes]
rs74017462	0.85[AMR][1000 genomes]
rs74017465	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74017470	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74018056	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74018057	0.85[EUR][1000 genomes]
rs8037868	1.00[ASN][1000 genomes]
rs8038018	1.00[ASN][1000 genomes]
rs8039231	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904223	chr15:53665247-54340070	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv904224	chr15:53668018-54210677	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1052235	chr15:53677524-54618723	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv542388	chr15:53677524-54618723	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv833009	chr15:53752901-53935303	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv9267	chr15:53821005-54132612	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv904225	chr15:53840665-53878948	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
8	nsv569435	chr15:53845097-53966805	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv934282	chr15:53872148-53989432	Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53865400-53872600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:53871400-53906600	Weak transcription	Fetal Kidney	kidney
3	chr15:53871800-53872800	Enhancers	Fetal Intestine Small	intestine
4	chr15:53872000-53873000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr15:53872200-53873200	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr15:53872400-53873200	Enhancers	Liver	Liver

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