Variant report

Variant	rs9559688
Chromosome Location	chr13:110631936-110631937
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:110622004..110623982-chr13:110630673..110633113,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1333982	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1333987	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56296105	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58503998	0.86[EUR][1000 genomes]
rs72652006	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72652007	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72652014	0.96[EUR][1000 genomes]
rs72670114	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72670117	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72670118	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72670125	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72670128	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72670134	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72670135	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72670137	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7330996	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7332564	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7999512	0.96[EUR][1000 genomes]
rs8000641	0.91[EUR][1000 genomes]
rs915017	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs915018	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9555650	0.85[EUR][1000 genomes]
rs9555651	0.85[EUR][1000 genomes]
rs9555653	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9555654	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9555658	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9555659	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9555660	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559676	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9559677	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9559679	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9559681	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9559691	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9559693	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559694	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559695	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559696	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559697	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559698	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559700	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559701	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9559705	0.96[EUR][1000 genomes]
rs9559706	0.96[EUR][1000 genomes]
rs9559707	0.96[EUR][1000 genomes]
rs9588040	0.95[EUR][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	nsv832719	chr13:110512259-110655883	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1049593	chr13:110615494-110725945	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110631200-110632000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:110631200-110632600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr13:110631400-110632000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr13:110631400-110632000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr13:110631400-110632000	Enhancers	NHEK	skin
6	chr13:110631400-110632200	Enhancers	HMEC	breast
7	chr13:110631600-110632000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr13:110631600-110633400	Enhancers	Fetal Brain Male	brain
9	chr13:110631800-110632400	Enhancers	Cortex derived primary cultured neurospheres	brain

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