Variant report

Variant	rs9828621
Chromosome Location	chr3:179746438-179746439
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11713683	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13324196	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs13325206	0.94[ASN][1000 genomes]
rs1522115	0.86[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap]
rs1529269	0.81[ASN][1000 genomes]
rs2056598	0.87[CHD][hapmap];0.93[JPT][hapmap]
rs2204095	0.86[CHB][hapmap];0.90[CHD][hapmap];0.93[JPT][hapmap]
rs2339932	0.87[CHD][hapmap];0.93[JPT][hapmap]
rs56397887	0.94[ASN][1000 genomes]
rs61623675	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6443687	0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6443688	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6764772	0.82[CHD][hapmap];0.92[JPT][hapmap]
rs6797922	0.86[CHB][hapmap];0.87[CHD][hapmap];0.93[JPT][hapmap]
rs6800148	0.86[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs73883468	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73883479	0.94[ASN][1000 genomes]
rs73883495	0.80[ASN][1000 genomes]
rs7630527	0.87[AMR][1000 genomes]
rs939824	0.94[ASN][1000 genomes]
rs939825	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs940522	0.86[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs9816641	0.87[CHD][hapmap];0.93[JPT][hapmap]
rs9826864	0.86[CHB][hapmap];0.83[CHD][hapmap];0.93[JPT][hapmap]
rs9828423	0.81[ASN][1000 genomes]
rs9833738	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9856007	0.87[CHD][hapmap];0.93[JPT][hapmap]
rs9866193	0.86[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs9881655	0.87[AMR][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	nsv829808	chr3:179574614-179754321	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1000756	chr3:179672703-179827373	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179726000-179754200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:179741000-179750200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:179742600-179753600	Weak transcription	Pancreas	Pancrea
4	chr3:179743200-179747600	Weak transcription	Dnd41	blood

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