Variant report

Variant	rs28439279
Chromosome Location	chr15:31949242-31949243
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	USF1	chr15:31949123-31949413	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
OTUD7A	TF binding region

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11852947	0.93[EUR][1000 genomes]
rs12324512	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12900845	0.93[EUR][1000 genomes]
rs12901569	1.00[EUR][1000 genomes]
rs12901746	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12901826	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12905154	0.93[EUR][1000 genomes]
rs13380070	1.00[EUR][1000 genomes]
rs16955808	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16956871	0.86[EUR][1000 genomes]
rs1847243	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2455705	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28857331	0.93[EUR][1000 genomes]
rs34181495	0.93[EUR][1000 genomes]
rs34326912	0.93[EUR][1000 genomes]
rs34398864	1.00[EUR][1000 genomes]
rs34448788	0.86[EUR][1000 genomes]
rs34549002	0.86[EUR][1000 genomes]
rs34658780	1.00[EUR][1000 genomes]
rs34896179	0.93[EUR][1000 genomes]
rs34919150	0.86[EUR][1000 genomes]
rs34936239	0.93[EUR][1000 genomes]
rs35523973	0.93[EUR][1000 genomes]
rs35827794	0.93[EUR][1000 genomes]
rs35879417	0.93[EUR][1000 genomes]
rs57342244	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs58249094	0.93[EUR][1000 genomes]
rs59475354	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs59477018	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71474672	0.93[EUR][1000 genomes]
rs71476545	1.00[EUR][1000 genomes]
rs71476546	0.93[EUR][1000 genomes]
rs71476552	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71476554	0.93[EUR][1000 genomes]
rs7167067	0.89[AMR][1000 genomes]
rs7168719	0.93[EUR][1000 genomes]
rs7176683	1.00[EUR][1000 genomes]
rs7176725	0.85[EUR][1000 genomes]
rs7177470	0.93[EUR][1000 genomes]
rs7177983	1.00[EUR][1000 genomes]
rs7182770	0.93[EUR][1000 genomes]
rs74012563	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7496896	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8024264	0.93[EUR][1000 genomes]
rs8024973	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8032083	0.93[EUR][1000 genomes]
rs8042234	0.93[EUR][1000 genomes]
rs8042718	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054147	chr15:31014507-31972706	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv542306	chr15:31014507-31972706	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv1051589	chr15:31728004-31972706	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv542320	chr15:31728004-31972706	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv2422205	chr15:31808878-32375021	Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv2422269	chr15:31808878-32375021	Weak transcription ZNF genes & repeats Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	esv2422351	chr15:31808878-32375021	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	esv2422455	chr15:31808878-32375021	Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv1045095	chr15:31835044-32439113	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv903846	chr15:31854847-32534037	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv469569	chr15:31886000-31974400	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv2751530	chr15:31897012-32511555	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv976915	chr15:31898697-31986377	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv1040340	chr15:31900747-32439113	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	esv15653	chr15:31908441-32019557	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
16	nsv1049598	chr15:31908665-32439113	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
17	nsv542321	chr15:31908665-32439113	Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
18	nsv9237	chr15:31916389-32445880	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
19	nsv568825	chr15:31917274-32334956	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
20	nsv903847	chr15:31928098-32104364	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
21	nsv903848	chr15:31932865-32467848	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
22	nsv1049846	chr15:31940542-32578129	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
23	nsv903849	chr15:31947951-32534037	Active TSS Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:31923400-31949400	Weak transcription	Brain Anterior Caudate	brain
2	chr15:31924200-31953000	Weak transcription	Brain Angular Gyrus	brain
3	chr15:31927000-31962600	Weak transcription	Brain Cingulate Gyrus	brain
4	chr15:31949200-31949400	Enhancers	Brain Inferior Temporal Lobe	brain

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