Variant report

Variant	rs9809279
Chromosome Location	chr3:53167195-53167196
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:53160337..53170540-chr3:53189028..53198029,25	MCF-7	breast:
2	chr3:53167017..53169952-chr3:53191720..53194469,2	K562	blood:
3	chr3:53165904..53167414-chr3:53254063..53255573,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163932	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2336669	0.81[YRI][hapmap]
rs6445550	0.81[YRI][hapmap]
rs73840215	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9833487	1.00[AMR][1000 genomes]
rs9870898	0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv590356	chr3:53134098-53170500	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
2	nsv460553	chr3:53147576-53185061	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
3	nsv590357	chr3:53147576-53185061	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
4	nsv834699	chr3:53151876-53325808	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53164800-53170600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:53165000-53168600	Weak transcription	Fetal Muscle Trunk	muscle
3	chr3:53165000-53169800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:53165000-53176200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:53165000-53176400	Weak transcription	Aorta	Aorta
6	chr3:53165200-53167200	Enhancers	HMEC	breast
7	chr3:53165200-53169800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:53165400-53167200	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr3:53165400-53167600	Weak transcription	Adipose Nuclei	Adipose
10	chr3:53165400-53168400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr3:53165400-53168600	Weak transcription	Colonic Mucosa	Colon
12	chr3:53165400-53168600	Weak transcription	Fetal Intestine Large	intestine
13	chr3:53165400-53169000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr3:53165400-53173800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:53165400-53176000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr3:53165600-53167600	Weak transcription	Liver	Liver
17	chr3:53165600-53168400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr3:53165600-53168400	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr3:53165600-53168400	Weak transcription	Hela-S3	cervix
20	chr3:53165600-53168400	Enhancers	HepG2	liver
21	chr3:53165600-53168600	Weak transcription	Primary B cells from peripheral blood	blood
22	chr3:53165600-53168600	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr3:53165600-53168600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:53165600-53168600	Weak transcription	Colon Smooth Muscle	Colon
25	chr3:53165600-53168600	Weak transcription	Fetal Lung	lung
26	chr3:53165600-53168600	Weak transcription	Lung	lung
27	chr3:53165600-53168600	Weak transcription	Pancreas	Pancrea
28	chr3:53165600-53168600	Weak transcription	Right Ventricle	heart
29	chr3:53165600-53168600	Weak transcription	Stomach Smooth Muscle	stomach
30	chr3:53165600-53168800	Weak transcription	Brain Substantia Nigra	brain
31	chr3:53165600-53168800	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr3:53165600-53168800	Weak transcription	Esophagus	oesophagus
33	chr3:53165600-53169200	Weak transcription	Brain Anterior Caudate	brain
34	chr3:53165600-53169600	Weak transcription	Fetal Muscle Leg	muscle
35	chr3:53165600-53170800	Weak transcription	Fetal Thymus	thymus
36	chr3:53165600-53173400	Weak transcription	Gastric	stomach
37	chr3:53165600-53174200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr3:53165600-53174200	Weak transcription	Fetal Heart	heart
39	chr3:53165600-53174200	Weak transcription	Left Ventricle	heart
40	chr3:53165600-53174600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr3:53165600-53177800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr3:53165600-53181400	Weak transcription	Spleen	Spleen
43	chr3:53165800-53168400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr3:53165800-53168600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr3:53165800-53168600	Weak transcription	Brain Hippocampus Middle	brain
46	chr3:53165800-53170600	Weak transcription	GM12878-XiMat	blood
47	chr3:53165800-53175400	Weak transcription	Placenta	Placenta
48	chr3:53166000-53167200	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr3:53166200-53168200	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr3:53166200-53174600	Weak transcription	Primary B cells from cord blood	blood

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