Variant report

Variant	rs9826525
Chromosome Location	chr3:49264615-49264616
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10049462	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10154895	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11552724	0.91[EUR][1000 genomes]
rs11706052	0.81[EUR][1000 genomes]
rs11706189	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11710247	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11713297	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11717524	0.92[ASN][1000 genomes]
rs11718982	0.86[EUR][1000 genomes]
rs11719220	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11720460	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11920267	0.86[ASN][1000 genomes]
rs12631989	0.92[ASN][1000 genomes]
rs12715434	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13064780	0.86[ASN][1000 genomes]
rs13068038	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13072554	0.80[EUR][1000 genomes]
rs13077498	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13096406	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2117938	0.92[ASN][1000 genomes]
rs2334958	0.97[ASN][1000 genomes]
rs34326553	0.87[EUR][1000 genomes]
rs34343820	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34566463	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34784192	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35060561	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35108630	0.81[EUR][1000 genomes]
rs35185152	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35218722	0.86[ASN][1000 genomes]
rs35673421	0.89[EUR][1000 genomes]
rs4955432	0.92[ASN][1000 genomes]
rs5030795	0.91[EUR][1000 genomes]
rs55921200	0.81[EUR][1000 genomes]
rs56306491	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs66991555	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67286839	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67831908	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71324939	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73084135	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7652746	0.92[ASN][1000 genomes]
rs9311439	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9814987	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9828310	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9835439	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9837237	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9837625	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9847839	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9850917	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9855123	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9862483	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9870030	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9880088	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9880309	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9990153	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834686	chr3:49106047-49270556	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1008750	chr3:49208815-49362401	Weak transcription Genic enhancers Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs9826525	WDR6	cis	Artery Tibial	GTEx
rs9826525	WDR6	cis	Whole Blood	GTEx
rs9826525	WDR6	cis	Adipose Subcutaneous	GTEx
rs9826525	USP4	Cis_1M	lymphoblastoid	RTeQTL
rs9826525	WDR6	cis	Esophagus Mucosa	GTEx
rs9826525	WDR6	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49250200-49274000	Weak transcription	Osteobl	bone
2	chr3:49251600-49265400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr3:49252000-49265600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:49255800-49264800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:49255800-49265600	Weak transcription	Aorta	Aorta
6	chr3:49256600-49265400	Weak transcription	Fetal Heart	heart
7	chr3:49256600-49275800	Weak transcription	NHLF	lung
8	chr3:49256800-49265200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:49256800-49265200	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr3:49256800-49266000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr3:49263400-49269400	Weak transcription	Ovary	ovary
12	chr3:49264000-49266600	ZNF genes & repeats	Fetal Muscle Leg	muscle
13	chr3:49264000-49267400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:49264200-49267000	ZNF genes & repeats	Adipose Nuclei	Adipose
15	chr3:49264600-49264800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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