Variant report

Variant	rs302570
Chromosome Location	chr6:39656448-39656449
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	chr6:39649513..39651387-chr6:39656055..39658420,2	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs11752840	0.86[ASN][1000 genomes]
rs11754307	0.86[ASN][1000 genomes]
rs11754807	0.82[CEU][hapmap]
rs1380343	0.88[YRI][hapmap]
rs149242	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs149607	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1563770	0.92[YRI][hapmap];0.80[AFR][1000 genomes]
rs159956	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs159957	0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs159958	0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs160019	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs160020	0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs160021	0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs160023	0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs160024	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs160028	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs160030	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs160032	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2199174	0.86[ASN][1000 genomes]
rs2446644	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2446646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2465672	1.00[CHB][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2466410	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2499450	1.00[YRI][hapmap]
rs2499452	0.92[YRI][hapmap]
rs302548	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302559	0.94[AFR][1000 genomes]
rs302560	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs302561	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs302562	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs302563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs302564	0.92[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs302565	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs302567	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs302568	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs302572	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs302573	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs302574	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs302575	0.98[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302579	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302586	0.93[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302587	0.93[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302588	0.87[YRI][hapmap];0.85[AFR][1000 genomes]
rs302589	0.97[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302591	0.86[ASN][1000 genomes]
rs302592	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302593	0.87[YRI][hapmap];0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs302595	0.87[YRI][hapmap]
rs302596	0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs303653	0.87[YRI][hapmap];0.86[ASN][1000 genomes]
rs303661	1.00[YRI][hapmap]
rs303675	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs303677	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs303678	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs303693	0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs303699	0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs303700	0.91[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs303701	0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs55815613	0.86[ASN][1000 genomes]
rs55941685	0.86[ASN][1000 genomes]
rs56130116	0.86[ASN][1000 genomes]
rs62402464	0.86[ASN][1000 genomes]
rs62402465	0.86[ASN][1000 genomes]
rs62403334	0.86[ASN][1000 genomes]
rs62403359	0.86[ASN][1000 genomes]
rs62405160	0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39653400-39656800	Enhancers	Brain Cingulate Gyrus	brain
2	chr6:39653400-39658200	Enhancers	Brain Substantia Nigra	brain
3	chr6:39653600-39657200	Enhancers	Brain Hippocampus Middle	brain
4	chr6:39653600-39660200	Weak transcription	Fetal Lung	lung
5	chr6:39654000-39656600	Weak transcription	NHLF	lung
6	chr6:39654400-39657200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:39654400-39658400	Weak transcription	Brain Angular Gyrus	brain
8	chr6:39655000-39658400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:39655600-39657200	Enhancers	Brain Anterior Caudate	brain
10	chr6:39655600-39657600	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr6:39655800-39656600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr6:39656000-39657000	Enhancers	Adipose Nuclei	Adipose
13	chr6:39656000-39657000	Enhancers	NHDF-Ad	bronchial
14	chr6:39656000-39657200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:39656000-39657200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:39656000-39657400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:39656400-39656800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr6:39656400-39657000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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