Variant report

Variant	rs11923659
Chromosome Location	chr3:110295279-110295280
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11719761	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13062461	0.88[EUR][1000 genomes]
rs13078633	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1355627	0.80[ASN][1000 genomes]
rs1398340	0.80[ASN][1000 genomes]
rs1398342	0.80[ASN][1000 genomes]
rs1398355	0.80[ASN][1000 genomes]
rs1398357	0.80[ASN][1000 genomes]
rs1398358	0.80[ASN][1000 genomes]
rs1512512	0.80[ASN][1000 genomes]
rs1512662	0.84[ASN][1000 genomes]
rs17202417	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1849379	0.86[EUR][1000 genomes]
rs1877461	0.80[ASN][1000 genomes]
rs1913096	0.80[ASN][1000 genomes]
rs1913097	0.80[ASN][1000 genomes]
rs2399331	0.80[ASN][1000 genomes]
rs2895375	0.86[ASN][1000 genomes]
rs36021113	0.80[EUR][1000 genomes]
rs3899903	0.80[ASN][1000 genomes]
rs4682009	0.80[ASN][1000 genomes]
rs4682010	0.80[ASN][1000 genomes]
rs4682011	0.80[ASN][1000 genomes]
rs4682179	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4682180	0.88[EUR][1000 genomes]
rs4682185	0.81[EUR][1000 genomes]
rs4682186	0.80[ASN][1000 genomes]
rs61302912	0.81[EUR][1000 genomes]
rs62270060	0.86[ASN][1000 genomes]
rs62271606	0.82[ASN][1000 genomes]
rs62271607	0.82[ASN][1000 genomes]
rs62271608	0.82[ASN][1000 genomes]
rs62271610	0.82[ASN][1000 genomes]
rs62271618	0.82[ASN][1000 genomes]
rs62271621	0.82[ASN][1000 genomes]
rs62271636	0.84[ASN][1000 genomes]
rs62271639	0.86[ASN][1000 genomes]
rs62271642	0.86[ASN][1000 genomes]
rs62271644	0.86[ASN][1000 genomes]
rs62271646	0.87[ASN][1000 genomes]
rs62271647	0.89[ASN][1000 genomes]
rs6765569	0.86[ASN][1000 genomes]
rs6768646	0.80[ASN][1000 genomes]
rs6768745	0.80[ASN][1000 genomes]
rs6781525	0.80[ASN][1000 genomes]
rs6781864	0.80[ASN][1000 genomes]
rs7621339	0.80[ASN][1000 genomes]
rs7626514	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7628651	0.80[ASN][1000 genomes]
rs7630242	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7634524	0.86[ASN][1000 genomes]
rs9809608	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9831873	0.88[EUR][1000 genomes]
rs9872133	0.87[EUR][1000 genomes]
rs9874430	0.80[ASN][1000 genomes]
rs9877235	0.88[EUR][1000 genomes]
rs9877920	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999414	chr3:110103126-110340180	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv829670	chr3:110134650-110308256	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv520365	chr3:110155172-110441165	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1001144	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv536687	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1001810	chr3:110158316-110522247	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1010230	chr3:110204439-110588814	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv536688	chr3:110204439-110588814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv829672	chr3:110206693-110361632	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1011034	chr3:110209344-110559021	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv536689	chr3:110209344-110559021	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
13	nsv460820	chr3:110283716-110321035	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv591274	chr3:110283716-110321035	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110287600-110295400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:110290400-110295400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:110293400-110301600	Weak transcription	Dnd41	blood
4	chr3:110293600-110295800	Enhancers	A549	lung
5	chr3:110294200-110296000	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:110294400-110298600	Enhancers	NHDF-Ad	bronchial
7	chr3:110294600-110297200	Enhancers	Muscle Satellite Cultured Cells	--
8	chr3:110294600-110299000	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr3:110294600-110299400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:110294600-110299800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:110294800-110295600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr3:110294800-110295800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:110294800-110296000	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr3:110294800-110296000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr3:110294800-110296000	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr3:110294800-110297400	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr3:110294800-110297400	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr3:110294800-110297400	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr3:110294800-110299400	Enhancers	ES-I3 Cell Line	embryonic stem cell

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