Variant report

Variant	rs12783599
Chromosome Location	chr10:38024332-38024333
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:38022553..38025256-chr10:38025509..38028052,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10827821	1.00[AFR][1000 genomes]
rs10827830	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10827834	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11011332	0.88[AFR][1000 genomes]
rs11011356	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011357	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11011358	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11011364	1.00[EUR][1000 genomes]
rs11011368	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11011375	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011376	1.00[EUR][1000 genomes]
rs11011385	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11011391	0.82[AFR][1000 genomes]
rs11011393	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11011403	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11498323	0.85[AMR][1000 genomes]
rs11812927	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11815775	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11816307	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11816995	0.88[AFR][1000 genomes]
rs11817696	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11818933	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11819551	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12240311	1.00[EUR][1000 genomes]
rs12242131	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12244864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12248857	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12250012	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12250395	1.00[EUR][1000 genomes]
rs12250465	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12251570	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12252091	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12252754	1.00[EUR][1000 genomes]
rs12256181	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12256794	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12257632	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12258024	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12258128	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12258252	1.00[EUR][1000 genomes]
rs12260310	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12262559	1.00[EUR][1000 genomes]
rs12262814	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12262927	1.00[EUR][1000 genomes]
rs12267847	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12267923	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12268435	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12761218	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12770231	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12778900	1.00[EUR][1000 genomes]
rs12779056	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34079297	1.00[AMR][1000 genomes]
rs34152840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34222428	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34591573	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34724357	1.00[EUR][1000 genomes]
rs34964888	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35006520	1.00[EUR][1000 genomes]
rs35047448	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs35056062	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35384774	0.81[AFR][1000 genomes]
rs35404142	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35818588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36188980	0.85[AMR][1000 genomes]
rs57753536	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60538050	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs71489160	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs71491203	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491210	1.00[EUR][1000 genomes]
rs71491212	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491214	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv975812	chr10:37990724-38084639	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv947607	chr10:38021929-38040760	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38021400-38024400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr10:38022200-38037000	Weak transcription	HSMM	muscle
3	chr10:38023400-38024600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:38023400-38026000	Enhancers	Placenta	Placenta
5	chr10:38023600-38024800	Enhancers	A549	lung
6	chr10:38023800-38024800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr10:38024200-38024400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr10:38024200-38025400	Enhancers	HepG2	liver

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