Variant report

Variant	rs6439569
Chromosome Location	chr3:135221827-135221828
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:135217363..135219573-chr3:135220450..135222728,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11918077	1.00[EUR][1000 genomes]
rs11918226	1.00[EUR][1000 genomes]
rs11918227	1.00[EUR][1000 genomes]
rs1374769	1.00[EUR][1000 genomes]
rs1447599	1.00[EUR][1000 genomes]
rs16843219	1.00[EUR][1000 genomes]
rs3843972	1.00[EUR][1000 genomes]
rs56129221	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56906398	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58194709	1.00[EUR][1000 genomes]
rs58701539	1.00[EUR][1000 genomes]
rs59443908	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59696952	1.00[EUR][1000 genomes]
rs60229691	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60382383	1.00[EUR][1000 genomes]
rs60843403	1.00[EUR][1000 genomes]
rs6766923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6774036	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6782493	1.00[EUR][1000 genomes]
rs6792545	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6802744	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6802755	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6804674	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6805595	1.00[EUR][1000 genomes]
rs72987539	1.00[EUR][1000 genomes]
rs72987540	1.00[EUR][1000 genomes]
rs72987558	1.00[EUR][1000 genomes]
rs72987563	1.00[EUR][1000 genomes]
rs72987579	1.00[AMR][1000 genomes]
rs72989740	1.00[EUR][1000 genomes]
rs72989744	1.00[EUR][1000 genomes]
rs72989761	1.00[EUR][1000 genomes]
rs7610973	1.00[EUR][1000 genomes]
rs7614390	1.00[EUR][1000 genomes]
rs7626827	1.00[EUR][1000 genomes]
rs7637843	1.00[EUR][1000 genomes]
rs7639153	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7640835	1.00[EUR][1000 genomes]
rs7644294	1.00[EUR][1000 genomes]
rs7644964	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7652797	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv527433	chr3:135221504-135225249	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv518089	chr3:135221504-135232994	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135210600-135222600	Weak transcription	Psoas Muscle	Psoas
2	chr3:135221400-135222000	Enhancers	Fetal Brain Male	brain
3	chr3:135221400-135222400	Enhancers	H1 Cell Line	embryonic stem cell
4	chr3:135221400-135223400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:135221600-135222000	Enhancers	Brain Germinal Matrix	brain
6	chr3:135221800-135222000	Enhancers	Fetal Brain Female	brain
7	chr3:135221800-135222200	Weak transcription	Primary B cells from peripheral blood	blood
8	chr3:135221800-135223000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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