Variant report

Variant	rs67505007
Chromosome Location	chr15:56196253-56196254
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10851599	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11071228	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11071231	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11632096	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11632295	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11633263	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11633313	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11636123	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11637576	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12102014	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12102020	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12232351	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12595359	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12595728	0.86[EUR][1000 genomes]
rs1509406	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16976600	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1912398	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1912402	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2089635	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2089636	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2102465	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2288344	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28660477	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28770330	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28773028	0.88[EUR][1000 genomes]
rs28778631	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28825119	0.86[EUR][1000 genomes]
rs28863270	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56333939	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs60482539	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66462353	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7162435	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7175686	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7176225	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7179116	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7182397	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72732282	0.83[EUR][1000 genomes]
rs72734373	0.88[EUR][1000 genomes]
rs8024944	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8026172	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8029247	0.83[EUR][1000 genomes]
rs8032158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8038646	0.88[EUR][1000 genomes]
rs8038884	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9920158	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9920159	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9920184	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv569542	chr15:56185262-56210929	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs67505007	PRTG	cis	Artery Tibial	GTEx

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56176000-56216200	Weak transcription	Fetal Intestine Small	intestine
2	chr15:56188400-56207800	Weak transcription	Primary T cells from cord blood	blood
3	chr15:56188600-56218400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr15:56190000-56220000	Weak transcription	Pancreas	Pancrea
5	chr15:56190200-56199400	Weak transcription	HSMMtube	muscle
6	chr15:56190200-56201800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:56190200-56221200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:56190400-56196600	Weak transcription	HMEC	breast
9	chr15:56190400-56199200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:56190400-56199200	Weak transcription	NHDF-Ad	bronchial
11	chr15:56190400-56199600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr15:56190400-56219800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:56190800-56196600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr15:56190800-56196600	Weak transcription	NHEK	skin
15	chr15:56190800-56199400	Weak transcription	Hela-S3	cervix
16	chr15:56192400-56207800	Weak transcription	Liver	Liver
17	chr15:56192600-56199800	Weak transcription	Psoas Muscle	Psoas
18	chr15:56192600-56200800	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr15:56192600-56209000	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr15:56194400-56196600	Weak transcription	HSMM	muscle
21	chr15:56195600-56196400	Weak transcription	Osteobl	bone
22	chr15:56195600-56196800	Enhancers	A549	lung
23	chr15:56195600-56199000	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr15:56195800-56199200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:56195800-56199200	Weak transcription	NH-A	brain
26	chr15:56195800-56199400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr15:56195800-56199400	Weak transcription	NHLF	lung
28	chr15:56196200-56197000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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