Variant report

Variant	rs12901569
Chromosome Location	chr15:31879260-31879261
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs11071318	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs11632840	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs11852947	0.93[EUR][1000 genomes]
rs12324512	1.00[EUR][1000 genomes]
rs12900845	0.93[EUR][1000 genomes]
rs12901746	0.93[EUR][1000 genomes]
rs12901826	0.93[EUR][1000 genomes]
rs12905154	0.93[EUR][1000 genomes]
rs13380070	1.00[EUR][1000 genomes]
rs16955808	0.93[EUR][1000 genomes]
rs16955884	1.00[CEU][hapmap]
rs16956871	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1847243	1.00[EUR][1000 genomes]
rs2338891	1.00[CEU][hapmap]
rs2455705	1.00[EUR][1000 genomes]
rs28439279	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	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34549002	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34658780	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34896179	0.93[EUR][1000 genomes]
rs34919150	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34936239	0.93[EUR][1000 genomes]
rs35523973	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35827794	0.93[EUR][1000 genomes]
rs35879417	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57342244	0.93[EUR][1000 genomes]
rs58249094	0.93[EUR][1000 genomes]
rs59475354	0.93[EUR][1000 genomes]
rs59477018	0.93[EUR][1000 genomes]
rs71474672	0.93[EUR][1000 genomes]
rs71476545	1.00[EUR][1000 genomes]
rs71476546	0.93[EUR][1000 genomes]
rs71476552	0.93[EUR][1000 genomes]
rs71476554	0.93[EUR][1000 genomes]
rs7168719	0.93[EUR][1000 genomes]
rs7170222	0.89[AMR][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[EUR][1000 genomes]
rs7496896	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs8024264	0.93[EUR][1000 genomes]
rs8024973	0.93[EUR][1000 genomes]
rs8032083	0.93[EUR][1000 genomes]
rs8042234	0.93[EUR][1000 genomes]
rs8042718	0.86[EUR][1000 genomes]
rs966398	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 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	nsv469633	chr15:31731003-31904613	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv482330	chr15:31731003-31904613	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv903845	chr15:31751664-31939001	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	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
9	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
10	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
11	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
12	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
13	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

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:31862400-31897000	Weak transcription	Gastric	stomach
2	chr15:31868200-31880800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr15:31872200-31886600	Weak transcription	Brain Anterior Caudate	brain
4	chr15:31875400-31883800	Weak transcription	Brain Substantia Nigra	brain
5	chr15:31875600-31882400	Weak transcription	Brain Hippocampus Middle	brain
6	chr15:31877400-31886800	Weak transcription	Brain Angular Gyrus	brain
7	chr15:31877800-31900800	Weak transcription	Pancreas	Pancrea
8	chr15:31878400-31879400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr15:31878800-31879400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:31878800-31880000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr15:31879000-31879600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr15:31879000-31886600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:31879200-31879400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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