Variant report

Variant	rs9828770
Chromosome Location	chr3:24437618-24437619
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24437199..24439496-chr3:24446087..24448957,3	MCF-7	breast:
2	chr3:24435906..24438010-chr3:24537590..24539727,2	K562	blood:
3	chr3:24429881..24432866-chr3:24437467..24439284,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11129151	0.93[ASW][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.84[MKK][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11707001	0.85[CHB][hapmap]
rs11711197	1.00[CEU][hapmap]
rs11920973	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13066150	0.85[CHB][hapmap]
rs13323817	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs13324127	0.81[EUR][1000 genomes]
rs17014703	1.00[CEU][hapmap]
rs17014715	1.00[CEU][hapmap]
rs17014722	1.00[CEU][hapmap]
rs28464948	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4241524	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4241525	0.84[ASN][1000 genomes]
rs4273319	0.84[ASN][1000 genomes]
rs4276129	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4358250	0.84[ASN][1000 genomes]
rs4444656	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4484144	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4524225	0.84[JPT][hapmap];0.84[ASN][1000 genomes]
rs4557108	0.86[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs4630885	0.84[ASN][1000 genomes]
rs4858611	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4858615	0.85[CHB][hapmap]
rs61209297	1.00[EUR][1000 genomes]
rs6796381	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7624363	0.85[CHB][hapmap]
rs9816421	1.00[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9826626	1.00[CEU][hapmap];0.88[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9882821	1.00[CEU][hapmap];0.88[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24420200-24441600	Weak transcription	Liver	Liver
2	chr3:24430600-24443600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:24431600-24437800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:24431600-24437800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:24431600-24438200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr3:24431800-24442800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:24432200-24440800	Weak transcription	Stomach Mucosa	stomach
8	chr3:24432200-24445200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr3:24432600-24442000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr3:24432600-24448400	Weak transcription	Gastric	stomach
11	chr3:24432600-24448600	Weak transcription	Right Ventricle	heart
12	chr3:24432800-24440800	Weak transcription	Fetal Intestine Large	intestine
13	chr3:24432800-24440800	Weak transcription	Fetal Intestine Small	intestine
14	chr3:24432800-24443200	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:24435200-24438600	Weak transcription	Fetal Lung	lung
16	chr3:24435200-24441000	Weak transcription	Left Ventricle	heart
17	chr3:24435200-24443200	Weak transcription	Psoas Muscle	Psoas
18	chr3:24436000-24438000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:24436000-24443200	Weak transcription	Pancreas	Pancrea
20	chr3:24436400-24441200	Weak transcription	Aorta	Aorta
21	chr3:24436600-24441000	Weak transcription	Colon Smooth Muscle	Colon
22	chr3:24436600-24441000	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr3:24436600-24441000	Weak transcription	HepG2	liver
24	chr3:24436600-24441200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr3:24437400-24438400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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