Variant report

Variant	rs73177459
Chromosome Location	chr3:105086826-105086827
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	chr3:104614272..104617054-chr3:105086331..105088318,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11710166	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11710857	0.81[EUR][1000 genomes]
rs11714275	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11714277	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11716035	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11718405	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11718457	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11719817	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1898655	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1955135	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2895300	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34029528	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57986655	0.82[EUR][1000 genomes]
rs59322590	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61522255	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6771935	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6771987	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6786815	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6794273	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73177465	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177470	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177478	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177489	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177494	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73179378	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73179384	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181374	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181376	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181380	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181387	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181395	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181396	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181397	0.85[ASN][1000 genomes]
rs73181401	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73183103	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73183108	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73183112	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73183114	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73183115	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73183185	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73183186	0.82[ASN][1000 genomes]
rs73183187	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73183188	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73183198	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73185106	0.82[EUR][1000 genomes]
rs73185114	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73185115	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73189021	0.82[EUR][1000 genomes]
rs7647426	0.82[ASN][1000 genomes]
rs7647531	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105083800-105087800	Active TSS	iPS-15b Cell Line	embryonic stem cell
2	chr3:105083800-105088800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
3	chr3:105083800-105088800	Active TSS	H9 Cell Line	embryonic stem cell
4	chr3:105084000-105087600	Active TSS	H1 Cell Line	embryonic stem cell
5	chr3:105084000-105088800	Active TSS	Brain Substantia Nigra	brain
6	chr3:105084000-105089000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:105084000-105089000	Active TSS	A549	lung
8	chr3:105084000-105089600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr3:105084200-105087800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:105084200-105088400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr3:105084200-105089000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:105084200-105089000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:105084200-105089000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr3:105084200-105089200	Active TSS	NHDF-Ad	bronchial
15	chr3:105084200-105089600	Active TSS	Brain Inferior Temporal Lobe	brain
16	chr3:105084200-105089600	Active TSS	NHLF	lung
17	chr3:105084200-105090400	Active TSS	Pancreatic Islets	Pancreatic Islet
18	chr3:105084400-105087200	Active TSS	iPS-20b Cell Line	embryonic stem cell
19	chr3:105084400-105087800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr3:105084400-105088800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr3:105084400-105088800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:105084400-105088800	Active TSS	Brain Cingulate Gyrus	brain
23	chr3:105084400-105088800	Active TSS	Gastric	stomach
24	chr3:105084400-105089000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:105084400-105089000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr3:105084400-105089000	Flanking Active TSS	Adipose Nuclei	Adipose
27	chr3:105084400-105089000	Active TSS	Aorta	Aorta
28	chr3:105084400-105089000	Active TSS	Brain Angular Gyrus	brain
29	chr3:105084400-105089000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
30	chr3:105084400-105089000	Active TSS	Ovary	ovary
31	chr3:105084400-105089400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:105084400-105089400	Active TSS	GM12878-XiMat	blood
33	chr3:105084400-105089600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr3:105084600-105087000	Flanking Bivalent TSS/Enh	Placenta	Placenta
35	chr3:105084600-105087600	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
36	chr3:105084600-105088600	Flanking Active TSS	Primary hematopoietic stem cells	blood
37	chr3:105084600-105088600	Active TSS	Small Intestine	intestine
38	chr3:105084600-105088800	Active TSS	Muscle Satellite Cultured Cells	--
39	chr3:105084600-105088800	Active TSS	Esophagus	oesophagus
40	chr3:105084600-105088800	Active TSS	Fetal Heart	heart
41	chr3:105084600-105089000	Active TSS	Breast Myoepithelial Primary Cells	Breast
42	chr3:105084600-105089000	Flanking Active TSS	Primary B cells from cord blood	blood
43	chr3:105084600-105089000	Active TSS	Rectal Smooth Muscle	rectum
44	chr3:105084600-105089000	Active TSS	Osteobl	bone
45	chr3:105084600-105089200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:105084600-105089200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr3:105084600-105089200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr3:105084600-105089200	Active TSS	HSMM	muscle
49	chr3:105084600-105089200	Active TSS	NH-A	brain
50	chr3:105084600-105089400	Active TSS	Brain Anterior Caudate	brain

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