Variant report

Variant	rs28821579
Chromosome Location	chr3:98669431-98669432
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10084679	1.00[AMR][1000 genomes]
rs12330381	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13094707	1.00[ASN][1000 genomes]
rs13317610	0.94[EUR][1000 genomes]
rs13318536	1.00[ASN][1000 genomes]
rs13318960	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13320266	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13320890	1.00[AMR][1000 genomes]
rs13322253	0.82[EUR][1000 genomes]
rs13327449	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13327485	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2133575	0.87[ASN][1000 genomes]
rs2454687	0.87[ASN][1000 genomes]
rs2470858	0.80[ASN][1000 genomes]
rs2470884	0.87[ASN][1000 genomes]
rs28429424	0.83[AMR][1000 genomes]
rs28528154	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28637457	1.00[ASN][1000 genomes]
rs28650813	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28883308	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28890260	0.83[AMR][1000 genomes]
rs34693680	1.00[ASN][1000 genomes]
rs56172805	0.94[EUR][1000 genomes]
rs59906228	0.82[EUR][1000 genomes]
rs6795351	0.87[ASN][1000 genomes]
rs72934623	0.83[AMR][1000 genomes]
rs72938540	0.91[EUR][1000 genomes]
rs7621508	0.87[ASN][1000 genomes]
rs9289696	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289699	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9289700	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9810407	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9818215	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9819279	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9819309	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828045	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9833945	1.00[AMR][1000 genomes]
rs9836437	0.94[EUR][1000 genomes]
rs9836915	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9838166	0.94[EUR][1000 genomes]
rs9838238	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9839559	1.00[AMR][1000 genomes]
rs9842226	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9842555	0.83[AMR][1000 genomes]
rs9848335	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9848583	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9850469	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9852537	1.00[AMR][1000 genomes]
rs9852889	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859042	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9864010	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870500	0.83[AMR][1000 genomes]
rs9870940	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9872073	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9872301	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9879302	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883751	0.94[EUR][1000 genomes]
rs996199	0.87[ASN][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:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98664800-98673000	Weak transcription	Osteobl	bone
2	chr3:98666400-98670600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:98667000-98672400	Weak transcription	NHDF-Ad	bronchial
4	chr3:98667800-98671400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:98668600-98670200	Weak transcription	A549	lung
6	chr3:98669400-98672600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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