Variant report

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

rs_ID	r²[population]
rs11129152	0.80[EUR][1000 genomes]
rs11918018	0.86[EUR][1000 genomes]
rs12495379	0.81[CEU][hapmap];0.84[TSI][hapmap]
rs13065876	0.88[EUR][1000 genomes]
rs13086388	0.86[EUR][1000 genomes]
rs13326381	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17014605	0.81[CEU][hapmap]
rs2135147	0.81[CEU][hapmap]
rs2196430	0.95[ASN][1000 genomes]
rs2217883	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2217884	0.90[EUR][1000 genomes]
rs28369472	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28380451	0.88[EUR][1000 genomes]
rs35340172	0.90[EUR][1000 genomes]
rs4309672	0.86[EUR][1000 genomes]
rs4602332	0.88[EUR][1000 genomes]
rs4858608	0.89[CEU][hapmap];0.84[TSI][hapmap]
rs9310740	0.81[CEU][hapmap];0.84[TSI][hapmap]
rs9816509	0.96[CEU][hapmap]
rs9839986	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9841040	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9851523	0.81[CEU][hapmap]
rs9852824	0.81[CEU][hapmap];0.84[TSI][hapmap]
rs9854304	0.94[ASN][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	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4858613	THRB	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24442000-24469800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:24443800-24475800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:24446000-24476800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:24458400-24469800	Weak transcription	Right Ventricle	heart
5	chr3:24458800-24490200	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:24460800-24476600	Weak transcription	Left Ventricle	heart
7	chr3:24464600-24469800	Weak transcription	Psoas Muscle	Psoas
8	chr3:24464800-24475400	Weak transcription	Aorta	Aorta
9	chr3:24466200-24474600	Weak transcription	Fetal Intestine Small	intestine
10	chr3:24467200-24469000	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr3:24467200-24470000	Enhancers	Brain Germinal Matrix	brain
12	chr3:24467800-24468000	Enhancers	Brain Angular Gyrus	brain
13	chr3:24467800-24468600	Enhancers	Fetal Brain Female	brain

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