Variant report

Variant	rs17159609
Chromosome Location	chr7:84708322-84708323
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10216037	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10224192	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10227790	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10230209	1.00[AMR][1000 genomes]
rs10231169	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10234337	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10235044	1.00[AMR][1000 genomes]
rs10235804	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10238552	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10238803	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10241357	1.00[AMR][1000 genomes]
rs10242005	1.00[AMR][1000 genomes]
rs10242855	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10243021	1.00[AMR][1000 genomes]
rs10247729	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10248781	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10249004	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10252528	1.00[AMR][1000 genomes]
rs10253650	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10254645	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10254905	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10256352	1.00[AMR][1000 genomes]
rs10256709	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10256725	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10256947	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10257324	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10258219	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10258244	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10264103	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10273523	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10275794	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10277419	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10282093	1.00[AMR][1000 genomes]
rs12334236	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1430595	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17148268	1.00[AMR][1000 genomes]
rs17148271	1.00[AMR][1000 genomes]
rs17159502	1.00[AMR][1000 genomes]
rs17159553	1.00[AMR][1000 genomes]
rs17159580	1.00[AMR][1000 genomes]
rs17159589	1.00[AMR][1000 genomes]
rs17159590	1.00[AMR][1000 genomes]
rs17159596	1.00[AMR][1000 genomes]
rs17159599	1.00[AMR][1000 genomes]
rs17159607	1.00[AMR][1000 genomes]
rs1830384	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1830385	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1830386	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1835404	1.00[AMR][1000 genomes]
rs1919288	1.00[AMR][1000 genomes]
rs1919289	1.00[AMR][1000 genomes]
rs2178116	1.00[AMR][1000 genomes]
rs28366993	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28379695	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28395450	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28412718	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28428821	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28450350	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28451585	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28503172	1.00[AMR][1000 genomes]
rs28576399	1.00[AMR][1000 genomes]
rs28610512	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28618178	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28648964	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28715185	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41518350	1.00[AMR][1000 genomes]
rs4398846	1.00[AMR][1000 genomes]
rs57698546	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57948301	1.00[AMR][1000 genomes]
rs58279956	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9655926	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9655927	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9886001	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949446	chr7:84003501-84763823	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	esv2422324	chr7:84530290-84944913	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv916645	chr7:84678606-85420011	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv869255	chr7:84678606-85444155	Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1032610	chr7:84683282-84725413	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
6	nsv1034620	chr7:84701267-84791576	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
7	nsv519125	chr7:84704447-84795710	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:84696000-84717600	Weak transcription	Fetal Stomach	stomach
2	chr7:84701200-84715400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:84701400-84709800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr7:84707800-84710800	Weak transcription	Fetal Lung	lung
5	chr7:84707800-84711000	Weak transcription	Fetal Kidney	kidney
6	chr7:84708200-84708600	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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