Variant report

Variant	rs9652415
Chromosome Location	chr15:40786910-40786911
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11070275	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11070277	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11632061	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11632370	0.80[EUR][1000 genomes]
rs11638742	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11639464	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12594548	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12595610	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12916042	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1806961	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1811513	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1813898	0.80[EUR][1000 genomes]
rs1869301	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1869302	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1993212	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2034651	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2034652	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2167795	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2412531	0.80[EUR][1000 genomes]
rs2412532	0.80[EUR][1000 genomes]
rs2412534	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2444302	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2924386	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2924388	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2959536	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2959545	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4923875	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4923876	0.80[EUR][1000 genomes]
rs4924472	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4924478	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4924479	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4924480	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4924481	0.80[EUR][1000 genomes]
rs588686	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs590046	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs603623	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs616937	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs618399	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs619711	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs620198	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6492951	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs654317	0.84[EUR][1000 genomes]
rs6582	0.80[EUR][1000 genomes]
rs7178756	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7183273	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7494968	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8029384	0.80[EUR][1000 genomes]
rs8034326	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs896795	0.80[EUR][1000 genomes]
rs976401	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34145	chr15:40549617-40889824	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

mRNA abundance (count:14)

SNP	Gene	Cis/trans	Tissue	Source
rs9652415	RP11-111A22.1	cis	Muscle Skeletal	GTEx
rs9652415	CCDC32	cis	multi-tissue	Pritchard
rs9652415	C15orf57	cis	lung	GTEx
rs9652415	C15orf57	cis	Muscle Skeletal	GTEx
rs9652415	RP11-111A22.1	cis	Heart Left Ventricle	GTEx
rs9652415	ZFYVE19	Cis_1M	lymphoblastoid	RTeQTL
rs9652415	RP11-111A22.1	cis	lung	GTEx
rs9652415	C15orf57	cis	Adipose Subcutaneous	GTEx
rs9652415	RP11-111A22.1	cis	Artery Tibial	GTEx
rs9652415	C15orf57	cis	Artery Tibial	GTEx
rs9652415	C15orf57	cis	Esophagus Muscularis	GTEx
rs9652415	C15orf57	cis	Nerve Tibial	GTEx
rs9652415	CCDC32	Cis_1M	lymphoblastoid	RTeQTL
rs9652415	C15orf57	cis	Artery Aorta	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40785600-40787200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr15:40785800-40787000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
3	chr15:40786000-40789600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr15:40786200-40791600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr15:40786200-40792400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr15:40786400-40791400	Weak transcription	Hela-S3	cervix
7	chr15:40786600-40792800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr15:40786600-40799200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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