Variant report

Variant	rs28840838
Chromosome Location	chr3:179880979-179880980
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs12330584	1.00[AMR][1000 genomes]
rs13315674	1.00[AMR][1000 genomes]
rs13327834	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13327863	1.00[AMR][1000 genomes]
rs28447629	1.00[AMR][1000 genomes]
rs28733407	1.00[AMR][1000 genomes]
rs28896899	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73063365	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73063390	1.00[AMR][1000 genomes]
rs73065365	1.00[AMR][1000 genomes]
rs73065371	1.00[AMR][1000 genomes]
rs73065372	1.00[AMR][1000 genomes]
rs73065386	1.00[AMR][1000 genomes]
rs9818857	1.00[AMR][1000 genomes]
rs9823915	1.00[AMR][1000 genomes]
rs9829030	1.00[AMR][1000 genomes]
rs9829787	1.00[AMR][1000 genomes]
rs9831310	1.00[AMR][1000 genomes]
rs9833897	1.00[AMR][1000 genomes]
rs9840843	1.00[AMR][1000 genomes]
rs9851756	1.00[AMR][1000 genomes]
rs9852598	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9856578	1.00[AMR][1000 genomes]
rs9864360	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9865880	1.00[AMR][1000 genomes]
rs9869708	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9871424	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9878327	1.00[AMR][1000 genomes]
rs9879382	1.00[AMR][1000 genomes]
rs9883933	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:1 , 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

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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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