Variant report

Variant	rs7182397
Chromosome Location	chr15:56181052-56181053
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10851599	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11071228	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11071231	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11632096	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11632295	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11633263	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11633313	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11636123	0.92[EUR][1000 genomes]
rs11637576	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12102014	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12102020	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12232351	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12595359	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12595728	0.85[EUR][1000 genomes]
rs1509406	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16976600	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1912398	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1912402	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2089635	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2089636	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2102465	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2288344	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28660477	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28770330	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28773028	0.86[EUR][1000 genomes]
rs28778631	0.92[EUR][1000 genomes]
rs28825119	0.85[EUR][1000 genomes]
rs28863270	0.91[EUR][1000 genomes]
rs56333939	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60482539	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66462353	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67505007	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7162435	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7175686	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7176225	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7179116	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72732282	0.85[EUR][1000 genomes]
rs72734373	0.86[EUR][1000 genomes]
rs8024944	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8026172	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8029247	0.82[EUR][1000 genomes]
rs8032158	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8038646	0.86[EUR][1000 genomes]
rs8038884	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9920158	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9920159	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9920184	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	esv2761966	chr15:56167250-56192861	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv3361699	chr15:56173709-56192307	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7182397	PRTG	cis	Artery Tibial	GTEx

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56166000-56185400	Weak transcription	Hela-S3	cervix
2	chr15:56172000-56186200	Weak transcription	Osteobl	bone
3	chr15:56172800-56189600	Weak transcription	Placenta	Placenta
4	chr15:56175200-56186000	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr15:56175400-56186200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr15:56175600-56186200	Weak transcription	NHEK	skin
7	chr15:56175800-56184800	Weak transcription	HSMM	muscle
8	chr15:56175800-56189400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr15:56176000-56181200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr15:56176000-56216200	Weak transcription	Fetal Intestine Small	intestine
11	chr15:56176800-56186800	Weak transcription	NH-A	brain
12	chr15:56177400-56185000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr15:56180400-56182800	Weak transcription	Psoas Muscle	Psoas
14	chr15:56181000-56181600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
15	chr15:56181000-56181600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:56181000-56181800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr15:56181000-56181800	ZNF genes & repeats	A549	lung

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