Variant report

Variant	rs9309935
Chromosome Location	chr3:84157141-84157142
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12714576	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12714580	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13061768	0.86[AMR][1000 genomes]
rs13068971	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13090658	0.87[EUR][1000 genomes]
rs7639074	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9309934	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9815938	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9818995	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9828940	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9853667	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9863258	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9867197	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs9868393	0.86[AMR][1000 genomes]
rs9869787	0.94[EUR][1000 genomes]
rs9873895	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9874870	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9876379	0.86[AMR][1000 genomes];0.89[EUR][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	nsv1006081	chr3:83421626-84262106	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1012918	chr3:83784488-84191829	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv536610	chr3:83784488-84191829	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv877075	chr3:83952144-84199075	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv877078	chr3:83991464-84199075	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1007008	chr3:84069044-84653896	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv536612	chr3:84069044-84653896	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv877081	chr3:84094818-84199075	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv460743	chr3:84094818-84644186	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv590814	chr3:84094818-84644186	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:84155200-84157400	Enhancers	NHEK	skin
2	chr3:84156000-84157600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:84156200-84157400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:84156200-84157600	Enhancers	NH-A	brain
5	chr3:84156400-84157400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:84156400-84157800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr3:84156400-84158200	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:84156600-84157400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:84156600-84157600	Enhancers	Muscle Satellite Cultured Cells	--
10	chr3:84156600-84158000	Enhancers	Hela-S3	cervix
11	chr3:84156600-84158800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr3:84156800-84157600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr3:84156800-84157800	Flanking Active TSS	HMEC	breast
14	chr3:84157000-84157400	Flanking Active TSS	A549	lung
15	chr3:84157000-84157800	Enhancers	Brain Anterior Caudate	brain
16	chr3:84157000-84158200	Enhancers	Brain Substantia Nigra	brain
17	chr3:84157000-84158600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:84157000-84159000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr3:84157000-84159200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:84157000-84159400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr3:84157000-84159400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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