Variant report

Variant	rs452776
Chromosome Location	chr21:40537820-40537821
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	chr21:40530353..40532192-chr21:40535723..40538696,2	MCF-7	breast:

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10154057	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1041439	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11702268	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11910971	0.93[EUR][1000 genomes]
rs13050247	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13050584	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13051430	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1541100	0.93[EUR][1000 genomes]
rs1541101	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1984748	0.92[EUR][1000 genomes]
rs2026266	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2142111	0.83[ASN][1000 genomes]
rs2142117	0.93[EUR][1000 genomes]
rs2150410	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2150412	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2183574	0.93[EUR][1000 genomes]
rs2183575	0.93[EUR][1000 genomes]
rs2183576	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2225425	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2236437	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2245455	0.83[ASN][1000 genomes]
rs2272576	0.89[EUR][1000 genomes]
rs2272577	0.89[EUR][1000 genomes]
rs2272578	0.89[EUR][1000 genomes]
rs2297258	0.89[EUR][1000 genomes]
rs2410104	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2410121	0.93[EUR][1000 genomes]
rs28399794	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs371625	0.83[ASN][1000 genomes]
rs377098	0.82[ASN][1000 genomes]
rs3831199	0.80[EUR][1000 genomes]
rs383967	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs391062	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs413078	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs414850	0.83[ASN][1000 genomes]
rs418298	0.83[ASN][1000 genomes]
rs418359	0.83[ASN][1000 genomes]
rs419469	0.83[ASN][1000 genomes]
rs425988	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs428602	0.83[ASN][1000 genomes]
rs429955	0.83[ASN][1000 genomes]
rs442972	0.83[ASN][1000 genomes]
rs444130	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs452377	0.83[ASN][1000 genomes]
rs4816619	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4816623	0.87[EUR][1000 genomes]
rs4817999	0.81[ASN][1000 genomes]
rs4818004	0.92[EUR][1000 genomes]
rs4818006	0.93[EUR][1000 genomes]
rs4818007	0.93[EUR][1000 genomes]
rs4818011	0.93[EUR][1000 genomes]
rs4818012	0.93[EUR][1000 genomes]
rs55885019	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56151678	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6517520	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6517524	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6517525	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6517529	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6517530	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6517531	0.93[EUR][1000 genomes]
rs6517532	0.93[EUR][1000 genomes]
rs6517534	0.87[EUR][1000 genomes]
rs6517536	0.93[EUR][1000 genomes]
rs6517537	0.90[EUR][1000 genomes]
rs6517539	0.93[EUR][1000 genomes]
rs6517540	0.89[EUR][1000 genomes]
rs6517541	0.89[EUR][1000 genomes]
rs6650847	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66519408	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66746936	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67212994	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67382266	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67649754	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68069991	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs68086041	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs68114370	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs718225	0.93[EUR][1000 genomes]
rs7275773	0.93[EUR][1000 genomes]
rs7276559	0.93[EUR][1000 genomes]
rs7276698	0.93[EUR][1000 genomes]
rs7280149	0.92[EUR][1000 genomes]
rs7282029	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7282604	0.83[ASN][1000 genomes]
rs7282724	0.93[EUR][1000 genomes]
rs7282947	0.93[EUR][1000 genomes]
rs7283439	0.92[EUR][1000 genomes]
rs7283652	0.93[EUR][1000 genomes]
rs8127391	0.93[EUR][1000 genomes]
rs8127537	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8128118	0.89[EUR][1000 genomes]
rs8129847	0.89[EUR][1000 genomes]
rs8130099	0.90[EUR][1000 genomes]
rs8130774	0.93[EUR][1000 genomes]
rs8130795	0.81[ASN][1000 genomes]
rs8131091	0.93[EUR][1000 genomes]
rs8131150	0.90[EUR][1000 genomes]
rs8131263	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8131307	0.90[EUR][1000 genomes]
rs8132230	0.93[EUR][1000 genomes]
rs914157	0.93[EUR][1000 genomes]
rs971229	0.93[EUR][1000 genomes]
rs973521	0.93[EUR][1000 genomes]
rs9975410	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9975614	0.84[EUR][1000 genomes]
rs9978591	0.93[EUR][1000 genomes]
rs9978953	0.92[EUR][1000 genomes]
rs9979547	0.92[EUR][1000 genomes]
rs9981656	0.87[EUR][1000 genomes]
rs9982122	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1061831	chr21:40376316-40583555	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv544443	chr21:40376316-40583555	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:40533600-40545400	Weak transcription	HUVEC	blood vessel
2	chr21:40536400-40541200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr21:40536800-40541200	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr21:40537200-40541200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr21:40537200-40541200	Weak transcription	Adipose Nuclei	Adipose
6	chr21:40537200-40541200	Weak transcription	HSMMtube	muscle
7	chr21:40537200-40542800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr21:40537200-40543000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr21:40537200-40543000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr21:40537200-40543000	Weak transcription	Lung	lung
11	chr21:40537200-40543000	Weak transcription	Pancreas	Pancrea
12	chr21:40537400-40541200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr21:40537400-40541200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr21:40537400-40541200	Weak transcription	Left Ventricle	heart
15	chr21:40537400-40542400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr21:40537400-40543000	Weak transcription	Aorta	Aorta
17	chr21:40537400-40543000	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr21:40537400-40543200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr21:40537600-40541200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr21:40537600-40541200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr21:40537600-40541200	Weak transcription	NHEK	skin
22	chr21:40537600-40553800	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr21:40537800-40541200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr21:40537800-40543000	Weak transcription	HepG2	liver

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