Variant report

Variant	rs2823834
Chromosome Location	chr21:17843167-17843168
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	chr21:17840645..17843394-chr21:17845243..17848250,3	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10084567	1.00[EUR][1000 genomes]
rs10084608	1.00[EUR][1000 genomes]
rs10084612	1.00[EUR][1000 genomes]
rs12482215	1.00[EUR][1000 genomes]
rs12482914	1.00[EUR][1000 genomes]
rs12483358	1.00[EUR][1000 genomes]
rs12483622	1.00[EUR][1000 genomes]
rs16998825	1.00[MEX][hapmap]
rs16998890	1.00[MEX][hapmap]
rs16999403	1.00[MEX][hapmap]
rs17468498	1.00[MEX][hapmap]
rs2040142	1.00[EUR][1000 genomes]
rs2155623	1.00[MEX][hapmap]
rs2212562	1.00[EUR][1000 genomes]
rs2226435	1.00[EUR][1000 genomes]
rs2823821	0.81[YRI][hapmap];1.00[EUR][1000 genomes]
rs2823822	1.00[EUR][1000 genomes]
rs2823825	1.00[EUR][1000 genomes]
rs2823826	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs2823827	1.00[MEX][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2823828	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2823830	0.82[YRI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2823831	1.00[EUR][1000 genomes]
rs2823832	1.00[MEX][hapmap];0.81[AMR][1000 genomes]
rs2823833	1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs2823835	0.88[ASW][hapmap];0.97[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2823851	1.00[MEX][hapmap]
rs2823853	1.00[EUR][1000 genomes]
rs2823854	1.00[EUR][1000 genomes]
rs2823855	1.00[EUR][1000 genomes]
rs2823859	1.00[MEX][hapmap]
rs2823860	1.00[EUR][1000 genomes]
rs2823866	1.00[EUR][1000 genomes]
rs28496427	1.00[EUR][1000 genomes]
rs28526796	1.00[AMR][1000 genomes]
rs28643005	1.00[AMR][1000 genomes]
rs28690432	1.00[AMR][1000 genomes]
rs28875621	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2896759	1.00[ASW][hapmap];0.84[LWK][hapmap];0.91[MKK][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2896760	1.00[EUR][1000 genomes]
rs57523013	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58072187	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58175294	1.00[EUR][1000 genomes]
rs58304651	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58640456	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60754236	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7277815	1.00[EUR][1000 genomes]
rs7278273	1.00[EUR][1000 genomes]
rs7279732	1.00[MEX][hapmap]
rs7280438	1.00[EUR][1000 genomes]
rs7283241	1.00[EUR][1000 genomes]
rs7283307	1.00[EUR][1000 genomes]
rs7283311	1.00[EUR][1000 genomes]
rs73363406	1.00[EUR][1000 genomes]
rs73363409	1.00[EUR][1000 genomes]
rs73363411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73366681	1.00[EUR][1000 genomes]
rs73366695	1.00[EUR][1000 genomes]
rs73368504	1.00[EUR][1000 genomes]
rs73368506	1.00[EUR][1000 genomes]
rs73368523	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73380342	1.00[AMR][1000 genomes]
rs73380344	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8128684	1.00[EUR][1000 genomes]
rs8131413	1.00[MEX][hapmap]
rs8132247	1.00[MEX][hapmap]
rs8132608	1.00[EUR][1000 genomes]
rs8132951	1.00[EUR][1000 genomes]
rs8133408	1.00[EUR][1000 genomes]
rs8134501	1.00[EUR][1000 genomes]
rs9305773	1.00[EUR][1000 genomes]
rs9974386	1.00[AMR][1000 genomes]
rs9975047	1.00[AMR][1000 genomes]
rs9975202	1.00[AMR][1000 genomes]
rs9975284	0.90[AMR][1000 genomes]
rs9975582	1.00[AMR][1000 genomes]
rs9976320	1.00[EUR][1000 genomes]
rs9976648	1.00[AMR][1000 genomes]
rs9976683	1.00[EUR][1000 genomes]
rs9977870	1.00[EUR][1000 genomes]
rs9980810	1.00[AMR][1000 genomes]
rs9980959	1.00[AMR][1000 genomes]
rs9981475	1.00[EUR][1000 genomes]
rs9981657	1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs9984639	1.00[MEX][hapmap]
rs9985090	0.90[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064857	chr21:17628760-18533131	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	345 gene(s)	inside rSNPs	diseases
2	nsv544382	chr21:17628760-18533131	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	345 gene(s)	inside rSNPs	diseases
3	nsv913416	chr21:17728224-17863882	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:17829000-17843600	Weak transcription	Brain Hippocampus Middle	brain
2	chr21:17830400-17845600	Weak transcription	Right Atrium	heart
3	chr21:17835400-17846400	Weak transcription	Left Ventricle	heart
4	chr21:17836400-17846200	Weak transcription	Fetal Muscle Leg	muscle
5	chr21:17836800-17848400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr21:17836800-17848600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr21:17837400-17848800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr21:17838000-17846200	Weak transcription	Ovary	ovary
9	chr21:17838000-17850200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr21:17839400-17843200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr21:17840400-17848200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr21:17840400-17860800	Weak transcription	HUVEC	blood vessel
13	chr21:17841000-17846200	Weak transcription	Osteobl	bone
14	chr21:17841000-17881800	Weak transcription	Hela-S3	cervix
15	chr21:17841400-17848200	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr21:17842200-17843400	Weak transcription	Fetal Heart	heart
17	chr21:17842200-17843400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr21:17842200-17843600	Enhancers	Aorta	Aorta
19	chr21:17842800-17843600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
20	chr21:17843000-17844000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr21:17843000-17845600	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links