Variant report

Variant	rs56340986
Chromosome Location	chr3:99125026-99125027
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12485414	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12486284	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12494885	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12494907	0.85[EUR][1000 genomes]
rs12496477	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12497126	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17773202	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35057566	0.95[EUR][1000 genomes]
rs4392452	0.95[EUR][1000 genomes]
rs4536866	0.95[EUR][1000 genomes]
rs4544654	0.95[EUR][1000 genomes]
rs55986915	0.85[EUR][1000 genomes]
rs57408953	0.86[AFR][1000 genomes]
rs59117687	0.86[AFR][1000 genomes]
rs59251575	0.86[AFR][1000 genomes]
rs72940133	0.88[AFR][1000 genomes]
rs73858101	0.85[EUR][1000 genomes]
rs73860903	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9682025	0.86[AFR][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	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
2	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
3	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
4	nsv530026	chr3:98837320-99340537	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv877216	chr3:99065296-99161022	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99118400-99130000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr3:99118600-99132800	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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