Variant report

Variant	rs60940077
Chromosome Location	chr3:156426850-156426851
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156426710..156429156-chr3:156532890..156534786,2	MCF-7	breast:
2	chr3:156421711..156423925-chr3:156426591..156428378,2	MCF-7	breast:
3	chr3:156272014..156273829-chr3:156424752..156426938,2	K562	blood:
4	chr3:156390493..156393262-chr3:156424528..156428189,3	K562	blood:

Variant related genes	Relation type
ENSG00000243926	Chromatin interaction
ENSG00000163659	Chromatin interaction
ENSG00000114850	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12632784	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12634572	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12635422	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4377450	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4377451	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs57684115	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs58324366	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60983118	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61702298	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73013991	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7609790	1.00[EUR][1000 genomes];0.81[ASN][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	nsv428745	chr3:156405054-156577840	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs60940077	CUL3	trans	lymphoblastoid	RTeQTL

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156394000-156436000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:156395600-156438600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:156396600-156441000	Weak transcription	Lung	lung
4	chr3:156407800-156428200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:156409000-156429800	Weak transcription	Gastric	stomach
6	chr3:156410000-156427400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:156411600-156429000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:156412400-156429400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:156412600-156429200	Strong transcription	HSMM	muscle
10	chr3:156416000-156437000	Weak transcription	Pancreas	Pancrea
11	chr3:156416000-156443000	Weak transcription	Aorta	Aorta
12	chr3:156417000-156430400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr3:156418400-156428600	Strong transcription	Primary T helper cells PMA-I stimulated	--
14	chr3:156418800-156428600	Strong transcription	HUVEC	blood vessel
15	chr3:156419800-156433800	Weak transcription	Esophagus	oesophagus
16	chr3:156420600-156428600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:156420600-156429800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:156420800-156427400	Strong transcription	Fetal Thymus	thymus
19	chr3:156420800-156428000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:156420800-156428800	Strong transcription	Duodenum Mucosa	Duodenum
21	chr3:156420800-156429000	Strong transcription	NHEK	skin
22	chr3:156420800-156429200	Strong transcription	NH-A	brain
23	chr3:156421000-156429000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:156421000-156429000	Strong transcription	HMEC	breast
25	chr3:156421000-156429400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:156422200-156427200	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:156422600-156428400	Strong transcription	Osteobl	bone
28	chr3:156422600-156429200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
29	chr3:156422800-156429200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:156422800-156429600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr3:156422800-156429800	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr3:156422800-156430400	Weak transcription	Brain Cingulate Gyrus	brain
33	chr3:156422800-156431400	Weak transcription	Fetal Kidney	kidney
34	chr3:156422800-156436400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:156422800-156436400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr3:156422800-156436400	Weak transcription	Placenta	Placenta
37	chr3:156422800-156437600	Weak transcription	Thymus	Thymus
38	chr3:156422800-156438600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr3:156422800-156442800	Weak transcription	Psoas Muscle	Psoas
40	chr3:156423000-156428400	Weak transcription	Fetal Intestine Small	intestine
41	chr3:156423000-156429000	Strong transcription	Liver	Liver
42	chr3:156423000-156430000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr3:156423000-156430000	Weak transcription	Fetal Stomach	stomach
44	chr3:156423000-156436000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr3:156423000-156443200	Weak transcription	Small Intestine	intestine
46	chr3:156423000-156445800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr3:156423400-156427600	Weak transcription	Right Ventricle	heart
48	chr3:156423600-156431600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr3:156424000-156428000	Weak transcription	Stomach Mucosa	stomach
50	chr3:156424000-156440800	Weak transcription	NHLF	lung

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