Variant report

Variant	rs12629896
Chromosome Location	chr3:87882562-87882563
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1021338	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10511135	0.90[EUR][1000 genomes]
rs11128008	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11916422	0.90[EUR][1000 genomes]
rs11917302	0.90[EUR][1000 genomes]
rs12485247	0.90[EUR][1000 genomes]
rs12486894	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12489455	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12491283	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12491978	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12492131	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12497315	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12497340	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12497845	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs12629921	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632620	0.80[CEU][hapmap]
rs12636145	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12636188	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1503427	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17025082	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17025172	0.85[EUR][1000 genomes]
rs17025178	0.85[EUR][1000 genomes]
rs1844434	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1847304	0.90[EUR][1000 genomes]
rs1847313	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1875716	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1910399	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1910401	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2010883	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2099228	0.90[EUR][1000 genomes]
rs2171819	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2343771	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2343774	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2932275	0.90[EUR][1000 genomes]
rs2932302	0.90[EUR][1000 genomes]
rs55776072	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55879630	0.90[EUR][1000 genomes]
rs57226509	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57688062	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57777775	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57850268	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs58359957	0.90[ASN][1000 genomes]
rs58460783	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58521812	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59504854	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59703125	0.90[EUR][1000 genomes]
rs60057665	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72911684	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72913703	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72913715	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72913722	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73847706	0.90[EUR][1000 genomes]
rs73847712	0.90[EUR][1000 genomes]
rs73847723	0.85[EUR][1000 genomes]
rs7638490	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv590918	chr3:87323334-87910931	Enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv834756	chr3:87763793-87938179	Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1009981	chr3:87821573-88003956	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv536634	chr3:87821573-88003956	Bivalent/Poised TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv460757	chr3:87863280-87949733	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv590919	chr3:87863280-87949733	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
7	nsv834758	chr3:87867363-88014975	Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:87867800-87912800	Weak transcription	K562	blood
2	chr3:87881200-87887400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr3:87881600-87882800	Enhancers	Primary hematopoietic stem cells	blood
4	chr3:87881800-87884600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr3:87882200-87882600	Enhancers	A549	lung
6	chr3:87882200-87907600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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