Variant report

Variant	rs9866889
Chromosome Location	chr3:23446855-23446856
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23442881..23445378-chr3:23445759..23448586,2	K562	blood:
2	chr3:23443862..23447627-chr3:23449749..23452969,4	MCF-7	breast:
3	chr3:23442881..23445228-chr3:23445484..23447259,2	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11922562	1.00[AMR][1000 genomes]
rs17013009	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17013099	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17013329	0.83[AFR][1000 genomes]
rs28548892	1.00[AMR][1000 genomes]
rs28567933	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58047209	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58879825	1.00[AMR][1000 genomes]
rs60014070	1.00[AMR][1000 genomes]
rs61081559	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61500565	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61636332	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6768277	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6795043	1.00[AMR][1000 genomes]
rs73138415	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138449	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138480	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138490	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138492	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73140509	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73140514	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73141810	1.00[AMR][1000 genomes]
rs73149654	1.00[AMR][1000 genomes]
rs73149686	1.00[AMR][1000 genomes]
rs73149689	1.00[AMR][1000 genomes]
rs7611624	1.00[AMR][1000 genomes]
rs7634565	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7652287	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9310716	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9681506	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9809364	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9810378	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9811442	1.00[AMR][1000 genomes]
rs9819566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9819788	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9821681	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9829577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9834737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9842159	1.00[AMR][1000 genomes]
rs9845340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9852053	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9861614	1.00[AMR][1000 genomes]
rs9869171	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9878638	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879132	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879217	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv1007373	chr3:23367952-23710331	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv876624	chr3:23385877-23483536	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv876625	chr3:23390301-23509597	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1012236	chr3:23408427-23469063	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1010032	chr3:23408985-23469063	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23431400-23447800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:23432200-23452600	Weak transcription	Aorta	Aorta
3	chr3:23433800-23459600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:23435000-23448200	Weak transcription	Psoas Muscle	Psoas
5	chr3:23438600-23448200	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr3:23442400-23448200	Weak transcription	Fetal Heart	heart
7	chr3:23444000-23447000	Enhancers	Primary B cells from cord blood	blood
8	chr3:23444200-23447400	Enhancers	Primary B cells from peripheral blood	blood
9	chr3:23444600-23459400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:23444600-23467000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:23445000-23463800	Weak transcription	HSMMtube	muscle
12	chr3:23445200-23449400	Weak transcription	Left Ventricle	heart
13	chr3:23445400-23447000	Enhancers	Hela-S3	cervix
14	chr3:23446000-23447400	Weak transcription	Colon Smooth Muscle	Colon
15	chr3:23446000-23450400	Weak transcription	Brain Substantia Nigra	brain
16	chr3:23446000-23454000	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:23446400-23447000	Enhancers	Brain Anterior Caudate	brain
18	chr3:23446600-23447600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:23446600-23447800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:23446600-23448600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr3:23446600-23448600	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr3:23446800-23447000	Enhancers	H1 Cell Line	embryonic stem cell
23	chr3:23446800-23447000	Enhancers	Fetal Brain Male	brain
24	chr3:23446800-23447000	Flanking Active TSS	GM12878-XiMat	blood
25	chr3:23446800-23447400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr3:23446800-23447800	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr3:23446800-23448400	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr3:23446800-23448600	Enhancers	HUES48 Cell Line	embryonic stem cell

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