Variant report

Variant	rs7716091
Chromosome Location	chr5:43348258-43348259
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZEB1	chr5:43348128-43348918	HepG2	liver:	n/a	chr5:43348419-43348426 chr5:43348418-43348429
2	EP300	chr5:43348257-43348700	HepG2	liver:	n/a	n/a
3	HNF4A	chr5:43347743-43348670	HepG2	liver:	n/a	chr5:43347859-43347874
4	ZEB1	chr5:43348217-43348691	HepG2	liver:	n/a	chr5:43348419-43348426 chr5:43348418-43348429

Variant related genes	Relation type
ENSG00000188850	TF binding region

Extended variants
information (count: 150 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:149)

rs_ID	r²[population]
rs10039048	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10039617	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10065852	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10462048	0.96[CEU][hapmap];1.00[CHB][hapmap]
rs10512825	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs10512827	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs10512828	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs10805671	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs10805672	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs10805673	0.92[CEU][hapmap];0.93[EUR][1000 genomes]
rs10805674	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs10805675	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs10941620	0.93[CEU][hapmap]
rs10941621	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs10941622	0.86[EUR][1000 genomes]
rs10941623	0.86[EUR][1000 genomes]
rs10941628	0.90[EUR][1000 genomes]
rs10941630	0.93[CEU][hapmap];0.93[EUR][1000 genomes]
rs10941631	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs10941632	0.87[EUR][1000 genomes]
rs11738086	0.93[EUR][1000 genomes]
rs11739009	0.93[CEU][hapmap];0.89[EUR][1000 genomes]
rs11739665	0.86[EUR][1000 genomes]
rs11740128	0.92[CEU][hapmap]
rs11741246	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs11742171	0.93[CEU][hapmap];0.93[EUR][1000 genomes]
rs11742712	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs11743622	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11743633	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs11747105	0.90[EUR][1000 genomes]
rs11747834	0.90[EUR][1000 genomes]
rs11950040	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs11950448	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs11951584	0.93[EUR][1000 genomes]
rs11956635	0.90[CEU][hapmap];0.86[EUR][1000 genomes]
rs11956936	0.89[EUR][1000 genomes]
rs11956988	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs11960415	0.88[EUR][1000 genomes]
rs12109933	0.89[EUR][1000 genomes]
rs12189016	0.90[EUR][1000 genomes]
rs12189447	0.93[EUR][1000 genomes]
rs12513864	0.86[EUR][1000 genomes]
rs12514393	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs12514399	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs12515072	0.93[CEU][hapmap];0.89[EUR][1000 genomes]
rs12516435	0.91[EUR][1000 genomes]
rs12517362	0.90[EUR][1000 genomes]
rs12518032	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs12518127	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs12519554	0.92[CEU][hapmap]
rs12520012	0.86[EUR][1000 genomes]
rs12520895	0.88[EUR][1000 genomes]
rs12522178	0.84[EUR][1000 genomes]
rs13161494	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13187876	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13659	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs1545753	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs1548097	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs1564196	0.92[CEU][hapmap];0.93[EUR][1000 genomes]
rs1564197	0.93[CEU][hapmap];0.93[EUR][1000 genomes]
rs1564198	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17244818	0.92[CEU][hapmap]
rs2126947	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2126948	0.93[CEU][hapmap];0.89[EUR][1000 genomes]
rs2126949	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs2169781	0.88[EUR][1000 genomes]
rs2330150	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2330242	0.89[EUR][1000 genomes]
rs2330243	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35239179	0.86[EUR][1000 genomes]
rs3733768	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3733769	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs4050485	0.93[EUR][1000 genomes]
rs4288122	0.93[CEU][hapmap];0.93[EUR][1000 genomes]
rs4320264	0.93[EUR][1000 genomes]
rs4373285	0.86[EUR][1000 genomes]
rs4395639	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs4443426	0.96[CEU][hapmap]
rs4574553	0.93[EUR][1000 genomes]
rs4591755	0.90[EUR][1000 genomes]
rs4866734	0.80[EUR][1000 genomes]
rs4866737	0.89[EUR][1000 genomes]
rs4866738	0.93[CEU][hapmap];0.89[EUR][1000 genomes]
rs4866741	0.96[CEU][hapmap];0.93[CHB][hapmap];0.89[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4866813	0.86[EUR][1000 genomes]
rs4866818	0.92[CEU][hapmap]
rs4866820	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4866821	0.92[EUR][1000 genomes]
rs4866822	0.92[CEU][hapmap];0.93[EUR][1000 genomes]
rs4866824	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs4866825	0.92[EUR][1000 genomes]
rs4866826	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[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	0.92[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	0.93[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	0.83[ASN][1000 genomes]
rs60445501	0.89[EUR][1000 genomes]
rs61627503	0.90[EUR][1000 genomes]
rs6451684	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[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	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs6863246	0.93[EUR][1000 genomes]
rs6863360	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6867954	0.87[EUR][1000 genomes]
rs6883936	0.81[ASN][1000 genomes]
rs6886499	0.85[CEU][hapmap];0.89[EUR][1000 genomes]
rs6887351	0.92[CEU][hapmap];0.93[EUR][1000 genomes]
rs6895805	0.84[EUR][1000 genomes]
rs6898398	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7445066	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs754527	0.87[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs7701391	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7701642	0.82[CEU][hapmap];0.93[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs7704588	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7708779	0.93[CEU][hapmap];0.93[EUR][1000 genomes]
rs7714027	0.90[CEU][hapmap];0.86[EUR][1000 genomes]
rs7714919	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7720165	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs7720681	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs7722781	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7727047	0.85[CEU][hapmap]
rs7734293	0.93[CEU][hapmap]
rs9292871	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9292874	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9790987	0.93[CEU][hapmap];0.86[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
rs7716091	NNT	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:43347200-43349400	Enhancers	HepG2	liver
2	chr5:43347200-43349800	Enhancers	Fetal Intestine Large	intestine
3	chr5:43347600-43349800	Enhancers	Fetal Intestine Small	intestine
4	chr5:43347800-43348400	Weak transcription	Esophagus	oesophagus
5	chr5:43348200-43348600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links