Variant report

Variant	rs6778473
Chromosome Location	chr3:160523234-160523235
allele	A/G
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: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs28404654	1.00[AMR][1000 genomes]
rs28434120	1.00[AMR][1000 genomes]
rs28435386	1.00[AMR][1000 genomes]
rs28460514	1.00[AMR][1000 genomes]
rs28461448	1.00[AMR][1000 genomes]
rs28754816	1.00[AMR][1000 genomes]
rs61745329	1.00[AMR][1000 genomes]
rs6766594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6767097	1.00[AMR][1000 genomes]
rs6779470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6791115	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6791258	1.00[AMR][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:52 , 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	chr3:160522400-160523400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr3:160522400-160523800	Enhancers	Rectal Smooth Muscle	rectum
23	chr3:160522400-160524200	Enhancers	Stomach Smooth Muscle	stomach
24	chr3:160522400-160524400	Enhancers	Adipose Nuclei	Adipose
25	chr3:160522400-160524600	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr3:160522400-160524600	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr3:160522600-160523400	Enhancers	Spleen	Spleen
28	chr3:160522600-160523800	Enhancers	Fetal Muscle Leg	muscle
29	chr3:160522600-160524200	Enhancers	Left Ventricle	heart
30	chr3:160522600-160524200	Enhancers	Right Ventricle	heart
31	chr3:160522800-160523400	Enhancers	Fetal Muscle Trunk	muscle
32	chr3:160522800-160524000	Enhancers	Fetal Brain Male	brain
33	chr3:160522800-160525200	Weak transcription	Brain Germinal Matrix	brain
34	chr3:160522800-160525800	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr3:160522800-160526000	Weak transcription	Gastric	stomach
36	chr3:160522800-160527600	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr3:160522800-160529000	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr3:160523000-160523800	Weak transcription	Brain Cingulate Gyrus	brain
39	chr3:160523000-160524000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr3:160523000-160524000	Weak transcription	Fetal Brain Female	brain
41	chr3:160523000-160524000	Weak transcription	NHDF-Ad	bronchial
42	chr3:160523000-160525800	Weak transcription	Brain Hippocampus Middle	brain
43	chr3:160523000-160526000	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr3:160523000-160526000	Weak transcription	Brain Substantia Nigra	brain
45	chr3:160523000-160526000	Weak transcription	Pancreas	Pancrea
46	chr3:160523000-160526200	Weak transcription	Esophagus	oesophagus
47	chr3:160523000-160526200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr3:160523000-160526400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr3:160523000-160532800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr3:160523200-160526000	Weak transcription	Fetal Heart	heart

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