Variant report

Variant	rs9861486
Chromosome Location	chr3:56141639-56141640
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 105 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10461036	0.92[EUR][1000 genomes]
rs10510779	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10510780	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10510781	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11428238	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13315826	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13326476	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13326628	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056469	0.96[EUR][1000 genomes]
rs17056472	0.95[EUR][1000 genomes]
rs17235263	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17235291	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17235305	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17235368	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17235375	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17235382	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17235389	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17235396	0.88[EUR][1000 genomes]
rs17825159	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17825183	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17825189	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17825201	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17825207	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17825213	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17825219	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17825278	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1982766	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28463735	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28464790	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35563958	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56101867	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58375176	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61401343	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6800841	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6807938	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73089299	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091008	0.88[EUR][1000 genomes]
rs73091011	0.92[EUR][1000 genomes]
rs73091012	0.92[EUR][1000 genomes]
rs73091052	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73091061	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73091207	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73091213	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091231	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73091236	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73091241	0.89[EUR][1000 genomes]
rs73091242	0.85[EUR][1000 genomes]
rs7625220	0.94[EUR][1000 genomes]
rs7625230	0.93[EUR][1000 genomes]
rs7625422	0.92[EUR][1000 genomes]
rs7629639	0.89[EUR][1000 genomes]
rs7629769	0.95[EUR][1000 genomes]
rs7632887	0.94[EUR][1000 genomes]
rs7632901	0.94[EUR][1000 genomes]
rs7651932	0.91[EUR][1000 genomes]
rs923127	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs923128	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9311594	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9311595	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9311596	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9810107	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9810354	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9811060	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9811789	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9811790	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814900	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9815611	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9817131	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9817492	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9817542	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9819890	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9820348	0.86[EUR][1000 genomes]
rs9820493	0.95[EUR][1000 genomes]
rs9827514	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828337	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9830503	0.95[EUR][1000 genomes]
rs9831925	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9837290	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838245	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9842617	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9844291	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850438	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9854960	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9855148	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855836	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857687	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9860909	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9862215	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9865648	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9865958	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9866234	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9866951	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9869654	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9870248	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870989	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9871223	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9874507	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9874662	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9880824	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881126	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881968	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9882373	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883636	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9861486	ASB14	cis	parietal	SCAN
rs9861486	ARHGEF3	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56136600-56144800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr3:56137200-56144800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:56138400-56145000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links