Variant report

Variant	rs73177494
Chromosome Location	chr3:105118968-105118969
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	chr3:105115312..105118076-chr3:105118161..105120646,2	MCF-7	breast:

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs11710166	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11710857	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11713535	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11714275	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11714277	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715283	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11716035	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718405	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718457	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11719817	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898655	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1955135	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2200473	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2399049	0.85[ASN][1000 genomes]
rs2895300	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34029528	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772542	0.85[ASN][1000 genomes]
rs3772544	0.85[ASN][1000 genomes]
rs3772547	0.85[ASN][1000 genomes]
rs481177	0.85[ASN][1000 genomes]
rs526297	0.85[ASN][1000 genomes]
rs57986655	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59322590	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs598425	0.85[ASN][1000 genomes]
rs61522255	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6771935	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771987	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786815	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794273	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73175407	0.85[ASN][1000 genomes]
rs73175433	0.85[ASN][1000 genomes]
rs73175435	0.85[ASN][1000 genomes]
rs73175442	0.85[ASN][1000 genomes]
rs73175449	0.85[ASN][1000 genomes]
rs73175451	0.85[ASN][1000 genomes]
rs73175463	0.85[ASN][1000 genomes]
rs73177459	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177465	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177470	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177478	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177489	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73179378	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73179384	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181374	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181376	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181380	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181387	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181395	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181396	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181397	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181401	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73183103	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73183108	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183112	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183114	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183115	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183185	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183186	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183187	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183188	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183198	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73185106	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73185114	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73185115	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73189021	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73189028	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73189034	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73189060	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192717	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192730	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192733	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192737	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192751	0.81[ASN][1000 genomes]
rs73192754	0.85[ASN][1000 genomes]
rs73192770	0.85[ASN][1000 genomes]
rs7647426	0.90[ASN][1000 genomes]
rs7647531	0.90[ASN][1000 genomes]
rs978436	0.82[EUR][1000 genomes];0.85[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:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105107000-105119400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:105110800-105120000	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr3:105113400-105121200	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:105113400-105121400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:105113400-105122400	Weak transcription	Primary B cells from cord blood	blood
6	chr3:105114600-105123400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:105115800-105122200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:105116600-105119200	Enhancers	Brain Hippocampus Middle	brain
9	chr3:105116600-105120200	Enhancers	NH-A	brain
10	chr3:105116800-105119000	Enhancers	Brain Angular Gyrus	brain
11	chr3:105116800-105119200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:105116800-105119800	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr3:105116800-105120400	Enhancers	Brain Anterior Caudate	brain
14	chr3:105116800-105121400	Enhancers	Brain Substantia Nigra	brain
15	chr3:105117000-105119000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr3:105117000-105119000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr3:105117000-105121400	Weak transcription	Aorta	Aorta
18	chr3:105117200-105121000	Weak transcription	Pancreas	Pancrea
19	chr3:105117200-105121200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:105117200-105121200	Weak transcription	Lung	lung
21	chr3:105117400-105119000	Enhancers	Liver	Liver
22	chr3:105117600-105119000	Enhancers	Pancreatic Islets	Pancreatic Islet
23	chr3:105117600-105119200	Enhancers	HMEC	breast
24	chr3:105117600-105120000	Weak transcription	Stomach Mucosa	stomach
25	chr3:105117800-105119800	Weak transcription	Osteobl	bone
26	chr3:105118200-105119000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr3:105118400-105119400	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr3:105118400-105121000	Enhancers	NHEK	skin
29	chr3:105118400-105122200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr3:105118600-105119000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr3:105118600-105119000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr3:105118600-105119000	ZNF genes & repeats	GM12878-XiMat	blood
33	chr3:105118600-105120800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr3:105118600-105122000	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr3:105118800-105119000	Flanking Active TSS	Brain Cingulate Gyrus	brain
36	chr3:105118800-105119000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
37	chr3:105118800-105119600	Enhancers	A549	lung
38	chr3:105118800-105120600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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