Variant report

Variant	rs959904
Chromosome Location	chr4:45102629-45102630
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10003954	0.84[ASN][1000 genomes]
rs10007392	0.82[ASN][1000 genomes]
rs10012579	0.85[ASN][1000 genomes]
rs10027158	0.84[ASN][1000 genomes]
rs10032137	0.84[ASN][1000 genomes]
rs10428432	0.84[ASN][1000 genomes]
rs10428433	0.84[ASN][1000 genomes]
rs10938387	0.84[ASN][1000 genomes]
rs10938393	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11722695	0.82[ASN][1000 genomes]
rs11732028	0.82[ASN][1000 genomes]
rs12504429	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12505216	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12510234	0.84[ASN][1000 genomes]
rs12512251	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12650122	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12650843	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13114648	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13126186	0.84[ASN][1000 genomes]
rs13135680	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13144044	0.82[CEU][hapmap]
rs13147324	0.83[ASN][1000 genomes]
rs13152342	0.84[ASN][1000 genomes]
rs1398264	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1473819	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1512304	0.82[ASN][1000 genomes]
rs1512310	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1512311	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1512312	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1512324	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1913018	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28550246	0.83[ASN][1000 genomes]
rs28705704	0.81[ASN][1000 genomes]
rs34111600	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34601600	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4299625	0.97[ASN][1000 genomes]
rs4429758	0.97[ASN][1000 genomes]
rs4518285	0.82[ASN][1000 genomes]
rs4561959	0.81[ASN][1000 genomes]
rs4574450	0.87[ASN][1000 genomes]
rs4588498	0.83[ASN][1000 genomes]
rs4616793	0.82[CHB][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs4974506	0.84[ASN][1000 genomes]
rs57883584	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62409635	0.92[EUR][1000 genomes]
rs6447405	0.96[ASN][1000 genomes]
rs6447423	0.82[ASN][1000 genomes]
rs6447433	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6810440	0.94[EUR][1000 genomes]
rs6814379	0.82[ASN][1000 genomes]
rs6817286	0.82[ASN][1000 genomes]
rs6828639	0.97[ASN][1000 genomes]
rs6842444	0.82[ASN][1000 genomes]
rs6845132	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7356163	0.81[ASN][1000 genomes]
rs7654230	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7671806	0.82[ASN][1000 genomes]
rs7672139	0.80[ASN][1000 genomes]
rs7680659	0.82[ASN][1000 genomes]
rs7682029	0.97[ASN][1000 genomes]
rs7686080	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7686413	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7693715	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs969992	0.85[ASN][1000 genomes]
rs9917962	0.84[ASN][1000 genomes]
rs9991441	0.84[ASN][1000 genomes]
rs9999372	0.86[ASN][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	nsv531944	chr4:44299343-45200700	Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1014327	chr4:44735209-45218149	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv829919	chr4:45069901-45253808	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:45096000-45104800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:45102200-45103800	Enhancers	Pancreatic Islets	Pancreatic Islet
3	chr4:45102400-45104000	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr4:45102600-45104000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr4:45102600-45104200	Enhancers	Fetal Heart	heart

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