Variant report

Variant	rs72938508
Chromosome Location	chr3:98646946-98646947
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:98619727..98621586-chr3:98644629..98647119,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000239462	Chromatin interaction
ENSG00000057019	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs2449044	1.00[AMR][1000 genomes]
rs2929492	1.00[AMR][1000 genomes]
rs56694316	1.00[AMR][1000 genomes]
rs56857413	1.00[AMR][1000 genomes]
rs56914517	1.00[AMR][1000 genomes]
rs57266345	0.91[AFR][1000 genomes]
rs59684850	0.86[AFR][1000 genomes]
rs60878971	1.00[AMR][1000 genomes]
rs61228839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72923090	1.00[AMR][1000 genomes]
rs72930963	0.86[AFR][1000 genomes]
rs72930970	0.86[AFR][1000 genomes]
rs72934618	0.91[AFR][1000 genomes]
rs72934634	0.87[AFR][1000 genomes]
rs72936606	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936636	1.00[AFR][1000 genomes]
rs72936671	0.95[AFR][1000 genomes]
rs72936680	0.95[AFR][1000 genomes]
rs72938510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72938569	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72938577	1.00[AMR][1000 genomes]
rs72940503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv877214	chr3:98445324-98738006	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1007486	chr3:98597738-99249081	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98642800-98648600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:98643000-98663800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:98643600-98647400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:98643600-98647400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:98646800-98647000	ZNF genes & repeats	A549	lung
6	chr3:98646800-98647000	Enhancers	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links