Variant report

Variant	rs10461746
Chromosome Location	chr5:43746215-43746216
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10035353	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10039531	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10045029	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10059603	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10062920	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10069341	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs10155531	0.84[EUR][1000 genomes]
rs10461745	0.92[EUR][1000 genomes]
rs10461748	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10472388	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11737988	0.87[EUR][1000 genomes]
rs13161165	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13173365	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13182721	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13187446	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13357293	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13361045	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34184759	0.92[EUR][1000 genomes]
rs34325384	0.87[EUR][1000 genomes]
rs34748969	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35023467	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35072002	0.87[EUR][1000 genomes]
rs35151191	0.90[EUR][1000 genomes]
rs35228179	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35383935	0.87[EUR][1000 genomes]
rs35388758	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35592802	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35672591	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35687864	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35697559	0.87[EUR][1000 genomes]
rs35842681	0.92[EUR][1000 genomes]
rs35867146	0.87[EUR][1000 genomes]
rs3884574	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3884575	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4318792	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4403180	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4449542	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4493678	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62368632	0.86[EUR][1000 genomes]
rs62368638	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62368640	0.92[EUR][1000 genomes]
rs62368655	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6869748	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6872959	0.87[EUR][1000 genomes]
rs6874033	0.92[EUR][1000 genomes]
rs6892300	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6897559	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73753626	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73753652	0.81[AMR][1000 genomes]
rs7713661	0.81[EUR][1000 genomes]
rs7713856	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7717645	0.86[EUR][1000 genomes]
rs7717974	0.90[EUR][1000 genomes]
rs7723874	0.92[EUR][1000 genomes]
rs7724195	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7725789	0.84[EUR][1000 genomes]
rs9292896	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9784611	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881108	chr5:43527432-43800333	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv3471542	chr5:43665651-43824536	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	esv3471543	chr5:43665767-43824443	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv537740	chr5:43729430-43782732	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10461746	NNT	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:43746200-43747200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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