Variant report

Variant	rs13082995
Chromosome Location	chr3:46242477-46242478
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	chr3:46228969..46230539-chr3:46241094..46242941,2	MCF-7	breast:

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10510748	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10510749	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11929489	0.93[EUR][1000 genomes]
rs13059906	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13061548	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13062450	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13062523	0.93[EUR][1000 genomes]
rs13069467	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13069750	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13069845	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13070099	0.93[EUR][1000 genomes]
rs13075270	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13075836	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13080979	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13083881	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13083914	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13084057	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13084175	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13088766	0.93[EUR][1000 genomes]
rs13089907	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13090848	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13092160	0.91[EUR][1000 genomes]
rs13095940	0.92[EUR][1000 genomes]
rs13095946	0.91[EUR][1000 genomes]
rs13096307	0.92[EUR][1000 genomes]
rs13096325	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13096371	0.92[EUR][1000 genomes]
rs13096873	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13097340	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13097666	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13098911	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17078694	0.86[AFR][1000 genomes]
rs17078698	0.86[AFR][1000 genomes]
rs17078704	0.93[ASN][1000 genomes]
rs17216717	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17282797	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17282922	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3091314	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3136672	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3136673	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3176824	0.88[EUR][1000 genomes]
rs3176825	0.93[EUR][1000 genomes]
rs3176826	0.93[EUR][1000 genomes]
rs3181076	0.93[EUR][1000 genomes]
rs3181078	0.93[EUR][1000 genomes]
rs3181080	0.93[EUR][1000 genomes]
rs34013035	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34047458	0.91[EUR][1000 genomes]
rs34059564	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34101673	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34134191	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34198655	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34280313	0.93[EUR][1000 genomes]
rs34340501	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34376347	0.91[EUR][1000 genomes]
rs34378541	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34401473	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34409248	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34423195	0.93[EUR][1000 genomes]
rs34498313	0.93[EUR][1000 genomes]
rs34523728	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34531115	0.91[EUR][1000 genomes]
rs34567015	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34570200	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34611049	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34625088	0.91[EUR][1000 genomes]
rs34693386	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34759782	0.93[EUR][1000 genomes]
rs34865316	0.92[EUR][1000 genomes]
rs34870159	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34897745	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34919616	0.93[EUR][1000 genomes]
rs34920132	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34985947	0.93[EUR][1000 genomes]
rs34996127	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35111399	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35178150	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35195804	0.93[EUR][1000 genomes]
rs35288652	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35335084	0.91[EUR][1000 genomes]
rs35354367	0.93[EUR][1000 genomes]
rs35429781	0.91[EUR][1000 genomes]
rs35434266	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35560301	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35566550	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35587265	0.91[EUR][1000 genomes]
rs35614049	0.91[EUR][1000 genomes]
rs35617677	0.91[EUR][1000 genomes]
rs35685805	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35754688	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35775079	0.91[EUR][1000 genomes]
rs35853141	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35919278	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35942803	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35960950	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35984988	0.93[EUR][1000 genomes]
rs36010446	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36189995	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3774630	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41405546	0.86[AFR][1000 genomes]
rs41432345	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs41491548	0.86[AFR][1000 genomes]
rs41491747	0.86[AFR][1000 genomes]
rs41511545	0.86[AFR][1000 genomes]
rs41537245	0.86[AFR][1000 genomes]
rs41537946	0.93[EUR][1000 genomes]
rs4443214	0.87[ASN][1000 genomes]
rs4493469	0.93[ASN][1000 genomes]
rs57115330	0.92[EUR][1000 genomes]
rs6765904	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327035	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327036	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327038	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327039	0.91[EUR][1000 genomes]
rs7610869	0.86[AFR][1000 genomes]
rs7631551	0.87[EUR][1000 genomes];0.97[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46235400-46247600	Weak transcription	Placenta	Placenta
2	chr3:46235400-46249600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:46239600-46243800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:46239800-46249400	Weak transcription	Primary T cells from cord blood	blood
5	chr3:46240400-46242800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr3:46241000-46244600	Weak transcription	Spleen	Spleen
7	chr3:46241200-46242600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:46241200-46246600	Genic enhancers	Primary monocytes fromperipheralblood	blood
9	chr3:46241600-46247400	Weak transcription	Brain Substantia Nigra	brain
10	chr3:46241800-46242800	Enhancers	Primary neutrophils fromperipheralblood	blood
11	chr3:46242400-46242800	Genic enhancers	Monocytes-CD14+_RO01746	blood
12	chr3:46242400-46246800	Weak transcription	Brain Hippocampus Middle	brain

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