Variant report

Variant	rs28563002
Chromosome Location	chr3:179870069-179870070
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11929255	1.00[AMR][1000 genomes]
rs2091272	1.00[AMR][1000 genomes]
rs2177724	1.00[AMR][1000 genomes]
rs6800776	1.00[AMR][1000 genomes]
rs73885426	1.00[AMR][1000 genomes]
rs73885431	1.00[AMR][1000 genomes]
rs73885436	1.00[AMR][1000 genomes]
rs9814266	1.00[AMR][1000 genomes]
rs9818608	1.00[AMR][1000 genomes]
rs9838211	1.00[AMR][1000 genomes]
rs9841350	1.00[AMR][1000 genomes]
rs9842185	1.00[AMR][1000 genomes]
rs9850267	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9859636	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9876952	1.00[AMR][1000 genomes]
rs9878194	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:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179865600-179886800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:179869800-179870200	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr3:179869800-179870200	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr3:179870000-179870400	Enhancers	iPS-18 Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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