Variant report

Variant	rs2616397
Chromosome Location	chr4:54580688-54580689
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1382083	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2126715	0.80[EUR][1000 genomes]
rs2245157	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2590776	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2590790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2590828	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2590830	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2590831	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2590832	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2616394	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2616403	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2616406	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2616408	0.90[EUR][1000 genomes]
rs2616413	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2616414	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59445919	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs728586	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73250987	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2616397	Hs.164463	cis	multi-tissue	Pritchard

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54569600-54583200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr4:54573200-54581400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr4:54577400-54581200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr4:54577400-54581400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr4:54577600-54584000	Enhancers	Osteobl	bone
6	chr4:54577800-54581400	Enhancers	NHDF-Ad	bronchial
7	chr4:54577800-54583600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr4:54578400-54582800	Weak transcription	Fetal Stomach	stomach
9	chr4:54578800-54583400	Weak transcription	Aorta	Aorta
10	chr4:54579000-54583000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr4:54579800-54583400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr4:54580000-54581600	Enhancers	HSMMtube	muscle
13	chr4:54580200-54583200	Enhancers	HSMM	muscle
14	chr4:54580200-54583800	Enhancers	NHLF	lung
15	chr4:54580400-54580800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr4:54580400-54581000	Enhancers	NH-A	brain
17	chr4:54580400-54583600	Enhancers	Muscle Satellite Cultured Cells	--
18	chr4:54580400-54583800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr4:54580400-54583800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr4:54580600-54581000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr4:54580600-54581000	Enhancers	Fetal Heart	heart
22	chr4:54580600-54581200	Enhancers	Fetal Brain Male	brain

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