Variant report

Variant	rs13081169
Chromosome Location	chr3:48356797-48356798
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:48355298..48357624-chr3:48412072..48414209,2	K562	blood:
2	chr3:48342864..48345435-chr3:48356461..48358274,2	K562	blood:
3	chr10:135180512..135182370-chr3:48354186..48357166,2	MCF-7	breast:
4	chr3:48341363..48344594-chr3:48355074..48357452,3	MCF-7	breast:
5	chr3:48341722..48343644-chr3:48355506..48358531,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172113	Chromatin interaction
ENSG00000164049	Chromatin interaction

Extended variants
information (count: 152 )
Associated
traits (count: 39 )

rSNPs within LD-proxies of this variant (count:151)

rs_ID	r²[population]
rs1045482	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs11130162	0.82[EUR][1000 genomes]
rs11130163	0.82[EUR][1000 genomes]
rs11130164	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1134867	0.83[EUR][1000 genomes]
rs11706221	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11706277	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11707606	0.83[EUR][1000 genomes]
rs11707997	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709691	0.96[CEU][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11710257	1.00[CEU][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11710861	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs11713476	0.86[EUR][1000 genomes]
rs11714176	1.00[CEU][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11714944	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715776	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715799	0.91[EUR][1000 genomes]
rs11715876	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11716371	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11716848	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717716	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11718329	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs11718350	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719365	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11928691	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13059037	0.96[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13060020	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13061269	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066044	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066758	0.95[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13067450	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13068265	0.96[CEU][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13068288	0.81[ASN][1000 genomes]
rs13069029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13070210	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13071960	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072018	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13079728	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13081633	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13082158	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13082859	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13084616	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13085251	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13087929	0.83[EUR][1000 genomes]
rs13090538	1.00[CEU][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13094727	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13095983	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097450	0.93[EUR][1000 genomes]
rs13100815	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17647717	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17786132	0.88[EUR][1000 genomes]
rs2125482	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2361685	0.83[EUR][1000 genomes]
rs2541	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3197223	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34076262	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34225441	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34523942	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34589064	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34630841	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34728236	0.92[EUR][1000 genomes]
rs34749846	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34946886	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35190747	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35297395	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35297486	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35411187	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35414021	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35456569	0.88[EUR][1000 genomes]
rs35778847	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35802497	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35944878	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs36020562	0.91[EUR][1000 genomes]
rs36064160	0.83[EUR][1000 genomes]
rs36075665	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36092070	0.96[EUR][1000 genomes]
rs36121690	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3729577	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs3731487	0.83[EUR][1000 genomes]
rs3731489	0.83[EUR][1000 genomes]
rs3731497	0.83[EUR][1000 genomes]
rs3731513	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs3731515	0.83[EUR][1000 genomes]
rs3731534	0.83[EUR][1000 genomes]
rs3731550	0.82[EUR][1000 genomes]
rs3731555	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs3937	0.96[CEU][hapmap];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4130522	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4130995	0.84[EUR][1000 genomes]
rs4131361	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4131362	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4371540	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4392440	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4404473	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4420898	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4479622	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4511915	0.96[CEU][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4511916	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4541431	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4619808	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4632568	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6442110	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs6442111	0.96[CEU][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6775179	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6782166	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6787500	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs6791930	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6793150	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793223	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793239	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794644	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6796343	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6796490	0.84[CEU][hapmap]
rs6800492	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6801801	0.96[CEU][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6804986	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6806112	0.81[CEU][hapmap]
rs71323391	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71323394	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71323395	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71323396	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71323397	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs745116	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs7614532	0.94[EUR][1000 genomes]
rs7619865	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs7621785	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7624450	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7632297	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7636461	0.93[EUR][1000 genomes]
rs7644414	0.83[EUR][1000 genomes]
rs7645425	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7647817	0.83[EUR][1000 genomes]
rs7648720	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7652233	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7653152	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7653336	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9311421	0.92[CEU][hapmap];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs936426	0.95[CEU][hapmap];0.83[EUR][1000 genomes]
rs936427	0.96[CEU][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9818937	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9819094	0.95[CEU][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9825637	1.00[CEU][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9830016	0.95[CEU][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9831531	0.83[EUR][1000 genomes]
rs9833309	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9834095	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9837228	0.96[CEU][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9846818	0.83[EUR][1000 genomes]
rs9847953	0.96[CEU][hapmap];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9850672	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs9853804	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][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	nsv834683	chr3:48301504-48493261	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases

mRNA abundance (count:39)

SNP	Gene	Cis/trans	Tissue	Source
rs13081169	MRPS18AP1	cis	Adipose Subcutaneous	GTEx
rs13081169	ZNF589	cis	Esophagus Mucosa	GTEx
rs13081169	SPINK8	cis	Whole Blood	GTEx
rs13081169	NME6	cis	multi-tissue	Pritchard
rs13081169	ZNF589	cis	lung	GTEx
rs13081169	NME6	cis	Esophagus Muscularis	GTEx
rs13081169	ZNF589	Cis_1M	lymphoblastoid	RTeQTL
rs13081169	ZNF589	cis	Esophagus Muscularis	GTEx
rs13081169	CDC25A	cis	Thyroid	GTEx
rs13081169	MRPS18AP1	cis	Esophagus Mucosa	GTEx
rs13081169	NME6	cis	Artery Tibial	GTEx
rs13081169	MRPS18AP1	cis	Thyroid	GTEx
rs13081169	CDC25A	cis	Artery Tibial	GTEx
rs13081169	MAP4	Cis_1M	lymphoblastoid	RTeQTL
rs13081169	NME6	Cis_1M	lymphoblastoid	RTeQTL
rs13081169	MRPS18AP1	cis	Nerve Tibial	GTEx
rs13081169	NME6	cis	Muscle Skeletal	GTEx
rs13081169	CDC25A	cis	Muscle Skeletal	GTEx
rs13081169	MRPS18AP1	cis	Skin Sun Exposed Lower leg	GTEx
rs13081169	ZNF589	cis	Cerebellum	GTEx
rs13081169	ZNF589	cis	Nerve Tibial	GTEx
rs13081169	MRPS18AP1	cis	Stomach	GTEx
rs13081169	MRPS18AP1	cis	Muscle Skeletal	GTEx
rs13081169	ZNF589	cis	Artery Tibial	GTEx
rs13081169	ZNF589	cis	Thyroid	GTEx
rs13081169	ZNF589	cis	Stomach	GTEx
rs13081169	NME6	cis	Skin Sun Exposed Lower leg	GTEx
rs13081169	MRPS18AP1	cis	Artery Tibial	GTEx
rs13081169	MRPS18AP1	cis	Esophagus Muscularis	GTEx
rs13081169	ZNF589	cis	Brain Pons	GTEx
rs13081169	ZNF589	cis	Adipose Subcutaneous	GTEx
rs13081169	ZNF589	cis	Skin Sun Exposed Lower leg	GTEx
rs13081169	CDC25A	cis	Adipose Subcutaneous	GTEx
rs13081169	MRPS18AP1	cis	lung	GTEx
rs13081169	ZNF589	cis	Artery Aorta	GTEx
rs13081169	MRPS18AP1	cis	Heart Left Ventricle	GTEx
rs13081169	FCF1P2	cis	Artery Tibial	GTEx
rs13081169	MRPS18AP1	cis	Artery Aorta	GTEx
rs13081169	NME6	cis	Nerve Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:48355800-48356800	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
2	chr3:48356600-48360200	Weak transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links