Variant report

Variant	rs7722781
Chromosome Location	chr5:43341015-43341016
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 139 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs10039048	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10039617	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10512825	0.86[EUR][1000 genomes]
rs10512827	0.89[EUR][1000 genomes]
rs10512828	0.89[EUR][1000 genomes]
rs10805671	0.81[EUR][1000 genomes]
rs10805672	0.86[EUR][1000 genomes]
rs10805673	0.93[EUR][1000 genomes]
rs10805674	0.92[EUR][1000 genomes]
rs10805675	0.89[EUR][1000 genomes]
rs10941621	0.86[EUR][1000 genomes]
rs10941622	0.86[EUR][1000 genomes]
rs10941623	0.86[EUR][1000 genomes]
rs10941628	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10941630	0.93[EUR][1000 genomes]
rs10941631	0.89[EUR][1000 genomes]
rs10941632	0.87[EUR][1000 genomes]
rs11738086	0.93[EUR][1000 genomes]
rs11739009	0.89[EUR][1000 genomes]
rs11739665	0.86[EUR][1000 genomes]
rs11741246	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11742171	0.93[EUR][1000 genomes]
rs11742712	0.89[EUR][1000 genomes]
rs11743622	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11743633	0.88[EUR][1000 genomes]
rs11747105	0.90[EUR][1000 genomes]
rs11747834	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11950040	0.85[EUR][1000 genomes]
rs11950448	0.93[EUR][1000 genomes]
rs11951584	0.93[EUR][1000 genomes]
rs11956635	0.86[EUR][1000 genomes]
rs11956936	0.89[EUR][1000 genomes]
rs11956988	0.90[EUR][1000 genomes]
rs11960415	0.88[EUR][1000 genomes]
rs12109933	0.89[EUR][1000 genomes]
rs12189016	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12189447	0.93[EUR][1000 genomes]
rs12513864	0.86[EUR][1000 genomes]
rs12514393	0.87[EUR][1000 genomes]
rs12514399	0.88[EUR][1000 genomes]
rs12515072	0.89[EUR][1000 genomes]
rs12516435	0.91[EUR][1000 genomes]
rs12517362	0.90[EUR][1000 genomes]
rs12518032	0.86[EUR][1000 genomes]
rs12518127	0.89[EUR][1000 genomes]
rs12520012	0.86[EUR][1000 genomes]
rs12520895	0.88[EUR][1000 genomes]
rs12522178	0.84[EUR][1000 genomes]
rs13161494	0.88[ASN][1000 genomes]
rs13187876	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13659	0.85[EUR][1000 genomes]
rs1545753	0.85[EUR][1000 genomes]
rs1548097	0.86[EUR][1000 genomes]
rs1564196	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1564197	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1564198	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2126947	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2126948	0.89[EUR][1000 genomes]
rs2126949	0.89[EUR][1000 genomes]
rs2169781	0.88[EUR][1000 genomes]
rs2330150	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2330242	0.89[EUR][1000 genomes]
rs2330243	0.88[ASN][1000 genomes]
rs35239179	0.86[EUR][1000 genomes]
rs3733768	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3733769	0.86[EUR][1000 genomes]
rs4050485	0.93[EUR][1000 genomes]
rs4288122	0.93[EUR][1000 genomes]
rs4320264	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4373285	0.86[EUR][1000 genomes]
rs4395639	0.82[EUR][1000 genomes]
rs4574553	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4591755	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4866734	0.80[EUR][1000 genomes]
rs4866737	0.89[EUR][1000 genomes]
rs4866738	0.89[EUR][1000 genomes]
rs4866741	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4866813	0.86[EUR][1000 genomes]
rs4866820	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4866821	0.92[EUR][1000 genomes]
rs4866822	0.93[EUR][1000 genomes]
rs4866824	0.93[EUR][1000 genomes]
rs4866825	0.92[EUR][1000 genomes]
rs4866826	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55634155	0.88[EUR][1000 genomes]
rs55759097	0.85[EUR][1000 genomes]
rs55759722	0.91[EUR][1000 genomes]
rs55794239	0.85[EUR][1000 genomes]
rs55800451	0.81[EUR][1000 genomes]
rs55992392	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56023994	0.80[EUR][1000 genomes]
rs56029402	0.82[EUR][1000 genomes]
rs56071328	0.92[EUR][1000 genomes]
rs56114604	0.86[EUR][1000 genomes]
rs56185290	0.92[EUR][1000 genomes]
rs56206275	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57066570	0.92[EUR][1000 genomes]
rs57392430	0.82[EUR][1000 genomes]
rs57401732	0.89[EUR][1000 genomes]
rs58358642	0.92[EUR][1000 genomes]
rs58679159	0.89[EUR][1000 genomes]
rs58966636	0.92[EUR][1000 genomes]
rs59078439	0.87[EUR][1000 genomes]
rs59625262	0.92[EUR][1000 genomes]
rs59814709	0.93[EUR][1000 genomes]
rs60207549	0.84[ASN][1000 genomes]
rs60445501	0.89[EUR][1000 genomes]
rs61627503	0.90[EUR][1000 genomes]
rs6451684	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66691321	0.86[EUR][1000 genomes]
rs66914803	0.89[EUR][1000 genomes]
rs67415672	0.82[EUR][1000 genomes]
rs67497876	0.88[EUR][1000 genomes]
rs67620667	0.89[EUR][1000 genomes]
rs67651757	0.88[EUR][1000 genomes]
rs67817333	0.88[EUR][1000 genomes]
rs6814	0.85[EUR][1000 genomes]
rs6863246	0.93[EUR][1000 genomes]
rs6863360	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6867954	0.87[EUR][1000 genomes]
rs6886499	0.89[EUR][1000 genomes]
rs6887351	0.93[EUR][1000 genomes]
rs6895805	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6898398	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7445066	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7701391	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7704588	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7708779	0.93[EUR][1000 genomes]
rs7714027	0.86[EUR][1000 genomes]
rs7714919	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7716091	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7720165	0.86[EUR][1000 genomes]
rs7720681	0.84[EUR][1000 genomes]
rs9292871	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9292874	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9790987	0.86[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	nsv1023741	chr5:42768215-43348145	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	309 gene(s)	inside rSNPs	diseases
2	nsv537737	chr5:42768215-43348145	Genic enhancers Enhancers Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	309 gene(s)	inside rSNPs	diseases
3	nsv508352	chr5:43237830-43391062	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7722781	NNT	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:43340800-43341600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr5:43341000-43341200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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