Variant report

Variant	rs56786891
Chromosome Location	chr3:159498595-159498596
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159492066..159493625-chr3:159498204..159501036,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10440023	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10470474	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10470475	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13314923	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28695486	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4621369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6781743	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73015941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73015943	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73015951	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73015956	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73015967	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73017937	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73017943	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73017960	1.00[EUR][1000 genomes]
rs7612849	1.00[EUR][1000 genomes]
rs7615917	0.83[AMR][1000 genomes]
rs7651449	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9811600	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9814058	1.00[EUR][1000 genomes]
rs9816506	0.83[AMR][1000 genomes]
rs9830331	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9832139	0.92[AMR][1000 genomes]
rs9845205	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9845849	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9846391	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9846819	1.00[EUR][1000 genomes]
rs9850723	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9853947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9853973	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9855171	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9872127	0.83[AMR][1000 genomes]
rs9877761	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9878860	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9880866	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];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	nsv4084	chr3:159492488-159513251	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 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	chr3:159484200-159501200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:159484400-159505400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:159484600-159500400	Weak transcription	Fetal Intestine Small	intestine
4	chr3:159490200-159501400	Weak transcription	Aorta	Aorta
5	chr3:159493400-159500600	Weak transcription	Gastric	stomach
6	chr3:159493600-159504400	Weak transcription	Right Atrium	heart
7	chr3:159493600-159505200	Weak transcription	Lung	lung
8	chr3:159493600-159505400	Weak transcription	Fetal Stomach	stomach
9	chr3:159493600-159509200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr3:159493600-159516200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr3:159493800-159502800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:159494000-159499400	Weak transcription	Fetal Kidney	kidney
13	chr3:159494600-159500000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr3:159494800-159498600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr3:159494800-159503000	Weak transcription	NHDF-Ad	bronchial
16	chr3:159495000-159502000	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr3:159495000-159503000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:159495000-159503200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:159495200-159499400	Weak transcription	Brain Angular Gyrus	brain
20	chr3:159495200-159501400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr3:159495200-159502000	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr3:159495200-159502600	Weak transcription	HUVEC	blood vessel
23	chr3:159495200-159503000	Weak transcription	NHLF	lung
24	chr3:159495200-159503200	Weak transcription	Adipose Nuclei	Adipose
25	chr3:159495200-159504400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr3:159495200-159504600	Weak transcription	HSMMtube	muscle
27	chr3:159496400-159499800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr3:159496400-159501000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr3:159497000-159498600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:159497200-159499400	Weak transcription	Liver	Liver
31	chr3:159497200-159499800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr3:159497600-159499000	Enhancers	Brain Anterior Caudate	brain
33	chr3:159497800-159498600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr3:159497800-159498600	Strong transcription	HSMM	muscle
35	chr3:159497800-159498800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr3:159497800-159498800	Enhancers	Brain Inferior Temporal Lobe	brain
37	chr3:159497800-159498800	Enhancers	Left Ventricle	heart
38	chr3:159497800-159501000	Weak transcription	Colon Smooth Muscle	Colon
39	chr3:159498000-159498600	Enhancers	Brain Substantia Nigra	brain
40	chr3:159498000-159499400	Weak transcription	Brain Hippocampus Middle	brain
41	chr3:159498000-159500600	Weak transcription	Osteobl	bone
42	chr3:159498200-159498800	Genic enhancers	NHEK	skin
43	chr3:159498200-159499400	Weak transcription	HMEC	breast
44	chr3:159498200-159500600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr3:159498200-159501400	Enhancers	Right Ventricle	heart
46	chr3:159498200-159501600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr3:159498400-159498600	Enhancers	Esophagus	oesophagus
48	chr3:159498400-159498800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr3:159498400-159498800	Genic enhancers	Stomach Smooth Muscle	stomach
50	chr3:159498400-159499600	Weak transcription	A549	lung

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