Variant report

Variant	rs59972399
Chromosome Location	chr15:33331678-33331679
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:33326108..33328482-chr15:33330757..33332929,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs56999001	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57101742	1.00[AMR][1000 genomes]
rs59310964	1.00[AMR][1000 genomes]
rs60059020	1.00[AMR][1000 genomes]
rs60916301	1.00[AMR][1000 genomes]
rs73370842	1.00[AMR][1000 genomes]
rs73372913	1.00[AMR][1000 genomes]
rs73372959	1.00[AMR][1000 genomes]
rs73372977	1.00[AMR][1000 genomes]
rs73374818	1.00[AMR][1000 genomes]
rs73374820	1.00[AMR][1000 genomes]
rs73374840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73374844	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73374886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73376646	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73376676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73378516	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73378545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73378548	1.00[AMR][1000 genomes]
rs73378555	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73378566	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73378570	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8031743	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription 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	10 gene(s)	inside rSNPs	diseases
3	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv1041609	chr15:33148035-33355999	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv542339	chr15:33148035-33355999	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	nsv903981	chr15:33207082-33550256	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
9	nsv568918	chr15:33244672-33446971	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv903982	chr15:33282844-33616150	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 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	chr15:33315400-33335400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:33324000-33336400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr15:33324000-33356800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:33325000-33341800	Weak transcription	NHLF	lung
5	chr15:33326600-33332000	Weak transcription	Gastric	stomach
6	chr15:33328000-33335000	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr15:33328400-33332200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:33329800-33337400	Weak transcription	Pancreas	Pancrea
9	chr15:33330000-33331800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr15:33330400-33332000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr15:33331200-33332600	Enhancers	Stomach Mucosa	stomach
12	chr15:33331400-33333200	Enhancers	Pancreatic Islets	Pancreatic Islet

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