Variant report

Variant	rs16893577
Chromosome Location	chr8:90270903-90270904
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:90270487..90271274-chr8:90627944..90628605,2	MCF-7	breast:
2	chr8:90269810..90272242-chr8:90285565..90287428,2	MCF-7	breast:
3	chr8:90266351..90268017-chr8:90270603..90272276,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10103974	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10808511	0.85[EUR][1000 genomes]
rs10955980	0.89[EUR][1000 genomes]
rs10955981	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10955982	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10955983	0.86[EUR][1000 genomes]
rs11985299	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs12541334	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12543673	0.80[ASN][1000 genomes]
rs12544184	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12544284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12544420	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12544874	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12547425	0.89[EUR][1000 genomes]
rs12547629	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12548260	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12549626	0.89[EUR][1000 genomes]
rs12676723	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12680830	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1479907	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16893311	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs16893581	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1905320	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2167310	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2338694	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28463376	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28493365	0.89[EUR][1000 genomes]
rs318285	0.86[EUR][1000 genomes]
rs57319541	0.86[EUR][1000 genomes]
rs58701424	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59583486	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59776336	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60997794	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62532521	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62532535	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62532536	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62532541	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6469928	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6469929	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6994681	0.81[AMR][1000 genomes]
rs6999851	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7015077	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7015317	0.89[EUR][1000 genomes]
rs7813237	0.89[EUR][1000 genomes]
rs7817834	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7829316	0.89[EUR][1000 genomes]
rs7835496	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7836610	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7841476	0.85[EUR][1000 genomes]
rs9642853	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][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	nsv465735	chr8:89760311-90729507	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv611714	chr8:89760311-90729507	Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv1024956	chr8:90104423-90459539	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv539671	chr8:90104423-90459539	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv1032886	chr8:90253748-90398240	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:90266200-90272000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr8:90266400-90272000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr8:90267200-90281200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr8:90269600-90272000	Enhancers	HUVEC	blood vessel
5	chr8:90269600-90272600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr8:90269800-90271200	Weak transcription	NHEK	skin
7	chr8:90269800-90271400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr8:90270200-90271400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr8:90270200-90272000	Enhancers	NH-A	brain
10	chr8:90270200-90272200	Enhancers	Muscle Satellite Cultured Cells	--
11	chr8:90270200-90272200	Enhancers	A549	lung
12	chr8:90270400-90271000	Weak transcription	HMEC	breast
13	chr8:90270600-90271600	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links