Variant report

Variant	rs55699461
Chromosome Location	chr3:51123345-51123346
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs17051747	1.00[EUR][1000 genomes]
rs17051755	1.00[EUR][1000 genomes]
rs55640023	1.00[EUR][1000 genomes]
rs55694933	1.00[EUR][1000 genomes]
rs55708856	1.00[EUR][1000 genomes]
rs56037427	1.00[EUR][1000 genomes]
rs56254449	1.00[EUR][1000 genomes]
rs56367927	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56870664	1.00[EUR][1000 genomes]
rs56890263	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56940802	1.00[EUR][1000 genomes]
rs56962519	1.00[EUR][1000 genomes]
rs57376071	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57742040	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57934774	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58225351	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58236908	1.00[EUR][1000 genomes]
rs58293845	1.00[EUR][1000 genomes]
rs58314480	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58548979	1.00[EUR][1000 genomes]
rs58803807	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59019902	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59557845	1.00[EUR][1000 genomes]
rs59599274	1.00[EUR][1000 genomes]
rs59652730	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59794491	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60166061	1.00[EUR][1000 genomes]
rs60774727	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60862896	1.00[EUR][1000 genomes]
rs60973580	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61174735	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61337570	1.00[EUR][1000 genomes]
rs61526358	1.00[EUR][1000 genomes]
rs61570923	1.00[EUR][1000 genomes]
rs6781959	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6799213	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6804101	1.00[EUR][1000 genomes]
rs6805545	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833977	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833978	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833980	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73833981	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833982	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833985	1.00[EUR][1000 genomes]
rs73833986	1.00[EUR][1000 genomes]
rs73833987	1.00[EUR][1000 genomes]
rs73833989	1.00[EUR][1000 genomes]
rs73833990	1.00[EUR][1000 genomes]
rs73833991	1.00[EUR][1000 genomes]
rs73833992	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73833993	1.00[EUR][1000 genomes]
rs73833996	1.00[EUR][1000 genomes]
rs73837406	1.00[EUR][1000 genomes]
rs73837420	1.00[EUR][1000 genomes]
rs73837421	1.00[EUR][1000 genomes]
rs73837422	1.00[EUR][1000 genomes]
rs73837423	1.00[EUR][1000 genomes]
rs73837425	1.00[EUR][1000 genomes]
rs73837428	1.00[EUR][1000 genomes]
rs73837431	1.00[EUR][1000 genomes]
rs73837432	1.00[EUR][1000 genomes]
rs73837433	1.00[EUR][1000 genomes]
rs73837434	1.00[EUR][1000 genomes]
rs7630259	1.00[EUR][1000 genomes]
rs7635095	1.00[EUR][1000 genomes]
rs7642077	1.00[EUR][1000 genomes]
rs9311462	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9990213	1.00[EUR][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	nsv491647	chr3:50856276-51245158	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51118200-51129400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:51119200-51124000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:51120600-51134400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:51120800-51128400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:51120800-51143000	Weak transcription	Brain Angular Gyrus	brain
6	chr3:51121000-51143000	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:51121000-51145200	Weak transcription	Fetal Brain Male	brain
8	chr3:51122000-51143000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:51122800-51143000	Weak transcription	Fetal Brain Female	brain
10	chr3:51123000-51132600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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