Variant report

Variant	rs9876952
Chromosome Location	chr3:179896247-179896248
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11929255	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2090762	0.89[YRI][hapmap]
rs2091272	0.90[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2177724	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28563002	1.00[AMR][1000 genomes]
rs6800776	0.84[ASW][hapmap];0.97[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73885426	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73885431	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73885436	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9814266	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9818608	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838211	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9841350	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9842185	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9850267	1.00[AMR][1000 genomes]
rs9859636	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9878194	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv878040	chr3:179823887-180128288	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr3:179885400-179898200	Weak transcription	HMEC	breast
2	chr3:179889600-179896800	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr3:179894600-179897000	Weak transcription	Adipose Nuclei	Adipose
4	chr3:179894800-179897000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:179894800-179897200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:179895600-179896800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:179895600-179897200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr3:179896000-179897000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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