Variant report

Variant	rs6794047
Chromosome Location	chr3:160523531-160523532
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160521593..160523754-chr3:160526329..160528531,2	MCF-7	breast:
2	chr3:160518067..160520836-chr3:160522097..160523990,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10513553	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12486979	0.81[EUR][1000 genomes]
rs12487861	0.89[ASN][1000 genomes]
rs13068380	0.92[EUR][1000 genomes]
rs1378654	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1378655	0.81[EUR][1000 genomes]
rs1378656	0.81[EUR][1000 genomes]
rs1378657	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1378658	0.83[ASN][1000 genomes]
rs1403048	0.80[EUR][1000 genomes]
rs1455869	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1598495	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1829716	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1851378	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1902282	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1915929	0.90[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2049214	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2049215	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2886905	0.81[EUR][1000 genomes]
rs59542611	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6775743	0.89[ASN][1000 genomes]
rs6781371	0.83[EUR][1000 genomes]
rs6805905	0.81[EUR][1000 genomes]
rs718757	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs722871	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7618832	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7630250	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634342	0.81[EUR][1000 genomes]
rs7640348	0.82[EUR][1000 genomes]
rs7642371	0.81[EUR][1000 genomes]
rs7643513	0.80[EUR][1000 genomes]
rs779058	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs897494	0.81[EUR][1000 genomes]
rs972909	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814394	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9815499	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9833075	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9866566	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9868489	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9883862	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160515400-160526400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:160520200-160525800	Weak transcription	Liver	Liver
3	chr3:160520200-160526000	Weak transcription	Aorta	Aorta
4	chr3:160520200-160526000	Weak transcription	Brain Angular Gyrus	brain
5	chr3:160520200-160526400	Weak transcription	Stomach Mucosa	stomach
6	chr3:160520400-160526400	Weak transcription	Brain Anterior Caudate	brain
7	chr3:160520400-160529600	Weak transcription	Colonic Mucosa	Colon
8	chr3:160521000-160523600	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr3:160521000-160523600	Weak transcription	Placenta	Placenta
10	chr3:160521000-160523800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr3:160521000-160523800	Weak transcription	Psoas Muscle	Psoas
12	chr3:160521000-160524000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr3:160521000-160526000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:160521000-160526000	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr3:160521000-160526000	Weak transcription	Right Atrium	heart
16	chr3:160521000-160526000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr3:160521000-160526400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:160521200-160523600	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr3:160522000-160525200	Enhancers	Colon Smooth Muscle	Colon
20	chr3:160522200-160524400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:160522400-160523800	Enhancers	Rectal Smooth Muscle	rectum
22	chr3:160522400-160524200	Enhancers	Stomach Smooth Muscle	stomach
23	chr3:160522400-160524400	Enhancers	Adipose Nuclei	Adipose
24	chr3:160522400-160524600	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr3:160522400-160524600	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr3:160522600-160523800	Enhancers	Fetal Muscle Leg	muscle
27	chr3:160522600-160524200	Enhancers	Left Ventricle	heart
28	chr3:160522600-160524200	Enhancers	Right Ventricle	heart
29	chr3:160522800-160524000	Enhancers	Fetal Brain Male	brain
30	chr3:160522800-160525200	Weak transcription	Brain Germinal Matrix	brain
31	chr3:160522800-160525800	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr3:160522800-160526000	Weak transcription	Gastric	stomach
33	chr3:160522800-160527600	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr3:160522800-160529000	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr3:160523000-160523800	Weak transcription	Brain Cingulate Gyrus	brain
36	chr3:160523000-160524000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:160523000-160524000	Weak transcription	Fetal Brain Female	brain
38	chr3:160523000-160524000	Weak transcription	NHDF-Ad	bronchial
39	chr3:160523000-160525800	Weak transcription	Brain Hippocampus Middle	brain
40	chr3:160523000-160526000	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr3:160523000-160526000	Weak transcription	Brain Substantia Nigra	brain
42	chr3:160523000-160526000	Weak transcription	Pancreas	Pancrea
43	chr3:160523000-160526200	Weak transcription	Esophagus	oesophagus
44	chr3:160523000-160526200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr3:160523000-160526400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr3:160523000-160532800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr3:160523200-160526000	Weak transcription	Fetal Heart	heart
48	chr3:160523200-160526400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr3:160523200-160528600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr3:160523400-160526200	Weak transcription	Fetal Muscle Trunk	muscle

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