Variant report

Variant	rs7539517
Chromosome Location	chr1:95440871-95440872
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10747462	0.81[CEU][hapmap];0.94[EUR][1000 genomes]
rs10874900	0.99[EUR][1000 genomes]
rs10874901	0.82[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes]
rs11165285	0.82[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes]
rs11165290	0.82[CEU][hapmap];0.95[EUR][1000 genomes]
rs11165291	0.89[EUR][1000 genomes]
rs11165292	0.86[EUR][1000 genomes]
rs11165296	0.88[EUR][1000 genomes]
rs11165301	0.84[EUR][1000 genomes]
rs12022525	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12036045	0.86[ASW][hapmap];0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.84[LWK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs12060761	0.82[EUR][1000 genomes]
rs12082888	0.82[CEU][hapmap];0.97[EUR][1000 genomes]
rs12120694	0.84[EUR][1000 genomes]
rs12402604	0.91[EUR][1000 genomes]
rs12408845	0.88[CEU][hapmap];0.82[CHB][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes]
rs17100482	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17112867	0.82[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.97[EUR][1000 genomes]
rs4427415	0.82[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes]
rs57001838	0.82[EUR][1000 genomes]
rs61772630	0.90[ASN][1000 genomes]
rs7526765	0.82[CEU][hapmap];0.90[JPT][hapmap];0.91[EUR][1000 genomes]
rs7540080	0.87[EUR][1000 genomes]
rs7551774	0.82[AFR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs7539517	FNBP1L	cis	parietal	SCAN
rs7539517	C1orf146	cis	cerebellum	SCAN
rs7539517	PTBP2	cis	parietal	SCAN
rs7539517	GFI1	cis	parietal	SCAN
rs7539517	FNBP1L	cis	cerebellum	SCAN

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95422000-95450800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr1:95429000-95467600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr1:95436200-95441200	Enhancers	HSMM	muscle
4	chr1:95436600-95445200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr1:95436600-95451200	Weak transcription	Small Intestine	intestine
6	chr1:95436800-95448600	Weak transcription	Brain Angular Gyrus	brain
7	chr1:95437000-95441200	Enhancers	HSMMtube	muscle
8	chr1:95437400-95442000	Weak transcription	Fetal Heart	heart
9	chr1:95437600-95441000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr1:95437600-95455600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr1:95437800-95445400	Weak transcription	Right Atrium	heart
12	chr1:95437800-95455000	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr1:95437800-95458400	Weak transcription	Liver	Liver
14	chr1:95438000-95445400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr1:95438000-95445400	Weak transcription	Left Ventricle	heart
16	chr1:95438200-95445800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr1:95438600-95441000	Enhancers	NHLF	lung
18	chr1:95439400-95445800	Weak transcription	Fetal Stomach	stomach
19	chr1:95439400-95446000	Weak transcription	Primary T cells from cord blood	blood
20	chr1:95439600-95448600	Weak transcription	Right Ventricle	heart
21	chr1:95439800-95441000	Enhancers	HMEC	breast
22	chr1:95439800-95441000	Enhancers	NH-A	brain
23	chr1:95439800-95441200	Enhancers	NHEK	skin
24	chr1:95440200-95441000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
25	chr1:95440200-95441200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:95440200-95450600	Weak transcription	Colon Smooth Muscle	Colon
27	chr1:95440400-95441200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr1:95440400-95441200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr1:95440400-95441200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr1:95440400-95441200	Enhancers	Osteobl	bone
31	chr1:95440400-95447800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr1:95440600-95441400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr1:95440800-95441200	Enhancers	NHDF-Ad	bronchial
34	chr1:95440800-95442000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr1:95440800-95445200	Weak transcription	Fetal Muscle Leg	muscle
36	chr1:95440800-95445400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr1:95440800-95445400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr1:95440800-95447200	Weak transcription	Adipose Nuclei	Adipose
39	chr1:95440800-95448800	Weak transcription	Skeletal Muscle Female	skeletal muscle

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