Variant report

Variant	rs73177470
Chromosome Location	chr3:105099000-105099001
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105085649..105087902-chr3:105098446..105100560,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170017	Chromatin interaction

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

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

rs_ID	r²[population]
rs11710166	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11710857	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11713535	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11714275	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11714277	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715283	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11716035	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718405	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[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];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898655	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1955135	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2200473	0.85[ASN][1000 genomes]
rs2399049	0.85[ASN][1000 genomes]
rs2895300	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34029528	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[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	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59322590	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs598425	0.85[ASN][1000 genomes]
rs61522255	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6771935	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771987	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786815	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794273	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[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];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177465	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177478	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177489	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177494	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73179378	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73179384	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181374	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181376	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181380	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181387	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181395	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181396	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181397	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181401	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73183103	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73183108	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183112	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183114	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183115	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183185	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183186	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183187	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183188	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183198	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73185106	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73185114	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73185115	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73189021	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73189028	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73189034	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73189060	0.85[ASN][1000 genomes]
rs73192717	0.85[ASN][1000 genomes]
rs73192730	0.85[ASN][1000 genomes]
rs73192733	0.85[ASN][1000 genomes]
rs73192737	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	0.85[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:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105089000-105107000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:105089200-105101800	Weak transcription	NHDF-Ad	bronchial
3	chr3:105090600-105101800	Weak transcription	Osteobl	bone
4	chr3:105090800-105104800	Weak transcription	NHLF	lung
5	chr3:105091400-105105000	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:105091600-105104000	Weak transcription	NH-A	brain
7	chr3:105091800-105104600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:105091800-105104800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:105092000-105106000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:105092800-105100200	Weak transcription	NHEK	skin
11	chr3:105092800-105103600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:105092800-105104200	Weak transcription	HepG2	liver
13	chr3:105092800-105105200	Weak transcription	HMEC	breast
14	chr3:105093200-105103800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:105094200-105105600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:105094400-105109000	Weak transcription	Primary hematopoietic stem cells	blood
17	chr3:105095000-105099000	Enhancers	Pancreatic Islets	Pancreatic Islet
18	chr3:105095800-105104400	Weak transcription	Brain Hippocampus Middle	brain
19	chr3:105097000-105106000	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr3:105098000-105104000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:105098000-105105200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:105098200-105101800	Weak transcription	Brain Anterior Caudate	brain
23	chr3:105098200-105102000	Weak transcription	Brain Substantia Nigra	brain
24	chr3:105098200-105103000	Weak transcription	A549	lung
25	chr3:105099000-105099800	Weak transcription	Pancreatic Islets	Pancreatic Islet

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