Variant report

Variant	rs12914787
Chromosome Location	chr15:53606685-53606686
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11070976	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11856300	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11856514	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11856604	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12439627	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12592658	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12900646	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12900725	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12901476	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12904851	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12907341	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1386170	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1486556	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1486557	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1486559	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1501071	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1552416	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17546789	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2134002	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4776131	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4776132	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4776133	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55968066	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7173165	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs750485	0.94[ASN][1000 genomes]
rs750486	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs751175	0.89[EUR][1000 genomes];0.94[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	nsv1037630	chr15:53324645-53708925	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12914787	GNB5	cis	parietal	SCAN
rs12914787	DUT	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53601400-53607000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr15:53605400-53607400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr15:53605400-53610800	Weak transcription	Pancreas	Pancrea
4	chr15:53605400-53615200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:53605400-53617400	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links