Variant report

Variant	rs1879377
Chromosome Location	chr3:98967395-98967396
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13074381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13318275	1.00[EUR][1000 genomes]
rs1402269	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1474207	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1851064	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1879376	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2341805	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2341806	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28738836	1.00[EUR][1000 genomes]
rs6804198	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72934730	1.00[EUR][1000 genomes]
rs73859814	1.00[EUR][1000 genomes]
rs7610578	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7612730	1.00[EUR][1000 genomes]
rs7630458	1.00[EUR][1000 genomes]
rs939446	1.00[EUR][1000 genomes]
rs9830015	1.00[EUR][1000 genomes]
rs9836634	1.00[EUR][1000 genomes]
rs9857240	1.00[EUR][1000 genomes]
rs9874838	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	esv1798220	chr3:98894142-99020463	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv508230	chr3:98933987-98969536	Enhancers Weak transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1012332	chr3:98944446-98969737	Enhancers Weak transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1013972	chr3:98944446-98998206	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv999173	chr3:98944446-99007686	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1002786	chr3:98944446-99013936	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98964800-98967800	Enhancers	NHEK	skin
2	chr3:98964800-98968200	Enhancers	Osteobl	bone
3	chr3:98964800-98968600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr3:98964800-98971400	Enhancers	Muscle Satellite Cultured Cells	--
5	chr3:98965000-98970000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:98965000-98970200	Enhancers	NHDF-Ad	bronchial
7	chr3:98965800-98969600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr3:98966400-98967600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:98966400-98968200	Enhancers	HUVEC	blood vessel
10	chr3:98966600-98967600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:98966600-98967600	Enhancers	HMEC	breast
12	chr3:98966600-98970200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:98966800-98969000	Enhancers	HSMM	muscle
14	chr3:98966800-98969400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:98966800-98969400	Enhancers	HSMMtube	muscle
16	chr3:98966800-98970000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:98966800-98970200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:98967000-98967600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr3:98967000-98967600	Enhancers	Aorta	Aorta
20	chr3:98967000-98968800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr3:98967200-98968600	Weak transcription	NH-A	brain

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