Variant report

Variant	rs13092225
Chromosome Location	chr3:156355404-156355405
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:156355072..156357150-chr3:156390850..156394545,3	MCF-7	breast:
2	chr3:156355246..156356229-chr3:156530151..156531163,7	MCF-7	breast:
3	chr3:156259833..156260828-chr3:156355203..156356175,21	MCF-7	breast:
4	chr3:156355218..156355945-chr3:156391541..156392481,3	MCF-7	breast:
5	chr3:156259847..156260725-chr3:156355203..156356175,11	MCF-7	breast:
6	chr3:156346980..156348606-chr3:156355155..156357044,2	K562	blood:
7	chr3:156355205..156356010-chr3:156391504..156392460,5	MCF-7	breast:
8	chr3:156355156..156356223-chr3:156530151..156531163,9	MCF-7	breast:
9	chr3:156260069..156260789-chr3:156355314..156356125,5	MCF-7	breast:
10	chr3:156355205..156356148-chr3:156391504..156392555,10	MCF-7	breast:
11	chr3:156346319..156347875-chr3:156354876..156356759,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000163659	Chromatin interaction
ENSG00000243926	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11709829	0.81[YRI][hapmap]
rs12485328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12488285	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12696042	0.81[CEU][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13073442	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1469536	0.81[YRI][hapmap]
rs1510276	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1510279	0.91[ASN][1000 genomes]
rs1510280	0.93[ASN][1000 genomes]
rs1850721	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1976598	0.83[ASN][1000 genomes]
rs2136690	0.91[CHB][hapmap];0.83[CHD][hapmap];0.93[GIH][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs28493995	0.91[ASN][1000 genomes]
rs4679782	0.83[ASN][1000 genomes]
rs6441090	0.83[ASN][1000 genomes]
rs6441091	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6766154	0.90[CEU][hapmap];0.92[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6772236	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6778962	0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs6790457	0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs6807248	0.83[ASN][1000 genomes]
rs6807894	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7617108	0.94[ASW][hapmap];0.90[CEU][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];0.92[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7628802	0.87[CHD][hapmap];0.92[JPT][hapmap];0.86[TSI][hapmap];0.83[ASN][1000 genomes]
rs7638768	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7639306	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9815389	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9822953	0.81[CEU][hapmap]
rs9834214	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9835981	0.93[ASN][1000 genomes]
rs9838430	0.81[CEU][hapmap]
rs9852504	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs985855	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs985856	0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 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	chr3:156348800-156360600	Weak transcription	Right Atrium	heart
2	chr3:156349400-156361000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:156351800-156356600	Weak transcription	Osteobl	bone
4	chr3:156351800-156361000	Weak transcription	Fetal Stomach	stomach
5	chr3:156353200-156358800	Weak transcription	GM12878-XiMat	blood
6	chr3:156353800-156355800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:156354200-156355800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:156354400-156357000	Weak transcription	K562	blood
9	chr3:156354400-156359000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr3:156355000-156355800	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr3:156355200-156356000	Enhancers	NHEK	skin
12	chr3:156355200-156356200	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr3:156355400-156355800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:156355400-156356200	Enhancers	Colonic Mucosa	Colon

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