Variant report

Variant	rs17025109
Chromosome Location	chr3:87916353-87916354
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1073129	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1393917	1.00[EUR][1000 genomes]
rs17025129	1.00[EUR][1000 genomes]
rs1827532	1.00[EUR][1000 genomes]
rs1906912	1.00[EUR][1000 genomes]
rs28665353	1.00[EUR][1000 genomes]
rs28786223	1.00[EUR][1000 genomes]
rs28880606	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60336865	1.00[EUR][1000 genomes]
rs6551508	1.00[EUR][1000 genomes]
rs6773344	1.00[EUR][1000 genomes]
rs6774094	1.00[EUR][1000 genomes]
rs6774364	1.00[EUR][1000 genomes]
rs6781824	1.00[EUR][1000 genomes]
rs6796732	1.00[EUR][1000 genomes]
rs72911672	1.00[EUR][1000 genomes]
rs72911679	1.00[EUR][1000 genomes]
rs72913711	1.00[EUR][1000 genomes]
rs73845080	1.00[EUR][1000 genomes]
rs7621718	1.00[EUR][1000 genomes]
rs7626243	1.00[EUR][1000 genomes]
rs7626476	1.00[EUR][1000 genomes]
rs7631622	1.00[EUR][1000 genomes]
rs7641305	1.00[EUR][1000 genomes]
rs7646993	0.81[LWK][hapmap]
rs7647226	1.00[EUR][1000 genomes]
rs9310054	1.00[EUR][1000 genomes]
rs9310055	1.00[EUR][1000 genomes]
rs9812260	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9813634	1.00[EUR][1000 genomes]
rs9817423	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9819558	1.00[EUR][1000 genomes]
rs9828274	1.00[EUR][1000 genomes]
rs9832462	1.00[EUR][1000 genomes]
rs9840323	1.00[EUR][1000 genomes]
rs9842182	1.00[EUR][1000 genomes]
rs9844011	1.00[EUR][1000 genomes]
rs9849417	1.00[EUR][1000 genomes]
rs9863972	1.00[EUR][1000 genomes]
rs9872903	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834756	chr3:87763793-87938179	Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv1009981	chr3:87821573-88003956	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv536634	chr3:87821573-88003956	Bivalent/Poised TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv460757	chr3:87863280-87949733	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv590919	chr3:87863280-87949733	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv834758	chr3:87867363-88014975	Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:87914400-87917200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr3:87915800-87916600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:87915800-87917000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr3:87916000-87918200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr3:87916200-87917400	Strong transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links