Variant report

Variant	rs9819788
Chromosome Location	chr3:23344345-23344346
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs17013009	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17013099	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17013329	0.94[YRI][hapmap]
rs28548892	1.00[AMR][1000 genomes]
rs28567933	1.00[AMR][1000 genomes]
rs28641973	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57747253	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58047209	1.00[AMR][1000 genomes]
rs58879825	1.00[AMR][1000 genomes]
rs61081559	1.00[AMR][1000 genomes]
rs61500565	1.00[AMR][1000 genomes]
rs61636332	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6768277	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6795043	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138415	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138434	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138436	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138449	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138480	1.00[AMR][1000 genomes]
rs73138490	1.00[AMR][1000 genomes]
rs73138492	1.00[AMR][1000 genomes]
rs73140509	1.00[AMR][1000 genomes]
rs73140514	1.00[AMR][1000 genomes]
rs73149654	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73149686	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73149689	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7634565	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7646028	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7652287	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9310716	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9681506	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9809364	0.87[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9810378	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9811442	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9819566	0.93[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9821681	0.81[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9829577	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9834737	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9842159	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9845340	0.93[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9847733	1.00[MEX][hapmap]
rs9852053	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs9861614	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9866889	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9869171	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs9878638	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879132	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs9879217	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][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	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv967177	chr3:23337450-23350050	Weak transcription Enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23337600-23358400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr3:23343000-23347200	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:23343200-23350200	Weak transcription	Psoas Muscle	Psoas
4	chr3:23343400-23344400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:23343400-23344400	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:23343400-23344600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:23343400-23346600	Weak transcription	Ovary	ovary
8	chr3:23343600-23344400	Enhancers	Osteobl	bone
9	chr3:23343600-23344600	Enhancers	Adipose Nuclei	Adipose
10	chr3:23343600-23344800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr3:23343600-23344800	Enhancers	HSMM	muscle
12	chr3:23343600-23347800	Enhancers	HSMMtube	muscle
13	chr3:23343800-23355200	Weak transcription	Aorta	Aorta
14	chr3:23344000-23345200	Weak transcription	Colon Smooth Muscle	Colon
15	chr3:23344200-23344400	Enhancers	Duodenum Smooth Muscle	Duodenum
16	chr3:23344200-23344600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:23344200-23345200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr3:23344200-23345200	Weak transcription	A549	lung
19	chr3:23344200-23345600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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