Variant report

Variant	rs72938540
Chromosome Location	chr3:98668378-98668379
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10935554	0.81[ASN][1000 genomes]
rs11489075	1.00[ASN][1000 genomes]
rs12330381	0.91[EUR][1000 genomes]
rs13317610	0.86[EUR][1000 genomes]
rs13320266	0.86[EUR][1000 genomes]
rs13327449	0.86[EUR][1000 genomes]
rs13327485	0.86[EUR][1000 genomes]
rs2449044	0.86[AFR][1000 genomes]
rs28528154	0.88[EUR][1000 genomes]
rs28650813	0.88[EUR][1000 genomes]
rs28821579	0.91[EUR][1000 genomes]
rs28883308	0.86[EUR][1000 genomes]
rs2929492	0.86[AFR][1000 genomes]
rs56172805	0.86[EUR][1000 genomes]
rs56694316	0.86[AFR][1000 genomes]
rs56857413	0.86[AFR][1000 genomes]
rs57962467	0.89[AFR][1000 genomes]
rs72938577	0.86[AFR][1000 genomes]
rs9289696	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9289699	0.88[EUR][1000 genomes]
rs9289700	0.88[EUR][1000 genomes]
rs9810407	0.86[EUR][1000 genomes]
rs9818215	0.86[EUR][1000 genomes]
rs9819279	1.00[EUR][1000 genomes]
rs9819309	0.91[EUR][1000 genomes]
rs9827857	1.00[ASN][1000 genomes]
rs9828045	0.91[EUR][1000 genomes]
rs9836437	0.86[EUR][1000 genomes]
rs9836915	0.86[EUR][1000 genomes]
rs9838166	0.86[EUR][1000 genomes]
rs9842226	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9848335	0.91[EUR][1000 genomes]
rs9850469	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9852889	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859042	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9864010	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9870940	0.88[EUR][1000 genomes]
rs9872073	0.83[EUR][1000 genomes]
rs9872301	0.86[EUR][1000 genomes]
rs9879302	0.91[EUR][1000 genomes]
rs9883751	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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
6	esv3440755	chr3:98666311-98680865	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98664200-98668400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:98664800-98673000	Weak transcription	Osteobl	bone
3	chr3:98666400-98670600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:98667000-98672400	Weak transcription	NHDF-Ad	bronchial
5	chr3:98667800-98671400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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