Variant report

Variant	rs12085402
Chromosome Location	chr1:57084276-57084277
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10157962	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11206874	0.94[AFR][1000 genomes]
rs11206876	0.92[AFR][1000 genomes]
rs12094381	0.92[AFR][1000 genomes]
rs17114167	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2206969	1.00[EUR][1000 genomes]
rs2206970	1.00[EUR][1000 genomes]
rs2223779	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2404995	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2746337	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2746341	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2746346	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796494	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796497	0.91[EUR][1000 genomes]
rs2796502	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796503	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796504	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796505	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796508	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796510	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796524	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796525	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796526	0.91[EUR][1000 genomes]
rs2796535	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796536	1.00[EUR][1000 genomes]
rs2796543	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857131	1.00[EUR][1000 genomes]
rs857133	0.91[EUR][1000 genomes]
rs857149	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857154	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857158	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs963527	1.00[EUR][1000 genomes];1.00[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	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv2762142	chr1:57082459-57094901	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12085402	PKP3	trans	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57083200-57091600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links