Variant report

Variant	rs4961683
Chromosome Location	chr9:16237324-16237325
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:16233531..16235152-chr9:16236701..16238739,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs12002237	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12003973	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12003991	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16934274	0.89[CEU][hapmap];0.81[AFR][1000 genomes]
rs16934286	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16934287	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4961468	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4961469	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4961471	0.94[ASN][1000 genomes]
rs4961673	0.81[AFR][1000 genomes]
rs4961674	0.81[AFR][1000 genomes]
rs4961675	0.85[AFR][1000 genomes]
rs4961676	0.85[AFR][1000 genomes]
rs4961677	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4961678	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4961679	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4961680	0.92[ASN][1000 genomes]
rs4961681	0.94[ASN][1000 genomes]
rs56119294	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57847950	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58214307	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs59560725	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60295056	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs73425648	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9406593	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9406594	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9406595	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9406596	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9407722	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs9407725	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9407726	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9407727	0.90[EUR][1000 genomes]
rs9407730	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9802651	0.92[ASN][1000 genomes]
rs9802678	0.94[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	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv429999	chr9:16102066-16389100	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv892639	chr9:16190403-16242088	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv892640	chr9:16206695-16260837	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv892641	chr9:16218659-16242088	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv892642	chr9:16233085-16282979	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 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	chr9:16235200-16243200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:16235400-16237600	Enhancers	Fetal Lung	lung
3	chr9:16235400-16242400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:16235800-16237400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr9:16235800-16237400	Enhancers	NHLF	lung
6	chr9:16235800-16239000	Enhancers	NHDF-Ad	bronchial
7	chr9:16235800-16239200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:16236000-16237400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr9:16236000-16237400	Enhancers	Muscle Satellite Cultured Cells	--
10	chr9:16236000-16237400	Enhancers	HSMMtube	muscle
11	chr9:16236000-16237600	Enhancers	HSMM	muscle
12	chr9:16236400-16240200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr9:16236600-16240200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr9:16236800-16237400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr9:16237000-16237400	Enhancers	Fetal Stomach	stomach
16	chr9:16237000-16240400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:16237000-16240600	Weak transcription	A549	lung
18	chr9:16237000-16245400	Weak transcription	Adipose Nuclei	Adipose
19	chr9:16237200-16240400	Weak transcription	Osteobl	bone

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