Variant report

Variant	rs7625648
Chromosome Location	chr3:159741759-159741760
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	chr3:159739668..159742959-chr3:159743211..159746773,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000242107	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs12487614	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489264	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12492679	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12496176	0.96[ASN][1000 genomes]
rs16830996	0.88[ASN][1000 genomes]
rs16831029	0.86[EUR][1000 genomes]
rs2115174	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34842858	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35321606	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59249997	0.86[EUR][1000 genomes]
rs59972445	0.88[ASN][1000 genomes]
rs6771983	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6784758	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7427782	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7427801	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7427807	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7429852	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9283612	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9290052	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9290053	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812698	0.88[ASN][1000 genomes]
rs9812995	0.88[ASN][1000 genomes]
rs9813028	1.00[ASN][1000 genomes]
rs9816860	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9827531	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9830969	0.88[ASN][1000 genomes]
rs9834418	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9835467	0.87[ASN][1000 genomes]
rs9838248	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9850910	0.92[ASN][1000 genomes]
rs9851355	0.92[ASN][1000 genomes]
rs9857045	0.88[ASN][1000 genomes]
rs9862350	0.88[ASN][1000 genomes]
rs9871440	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872678	0.88[ASN][1000 genomes]
rs9873090	0.88[ASN][1000 genomes]
rs9883287	0.88[ASN][1000 genomes]
rs9968092	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9968093	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9968095	0.92[ASN][1000 genomes]
rs9968097	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829769	chr3:159606913-159805282	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv1806743	chr3:159723529-159744022	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159739000-159742000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr3:159740600-159742200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:159740800-159741800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr3:159740800-159742200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:159740800-159742200	Enhancers	NHDF-Ad	bronchial
6	chr3:159741200-159744000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:159741400-159743000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr3:159741600-159744600	Weak transcription	NH-A	brain
9	chr3:159741600-159744600	Weak transcription	NHLF	lung
10	chr3:159741600-159744800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:159741600-159745200	Weak transcription	HMEC	breast

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