Variant report

Variant	rs10509689
Chromosome Location	chr10:97345469-97345470
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs10882639	1.00[CEU][hapmap];0.89[GIH][hapmap];0.92[MEX][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes]
rs11188385	0.90[EUR][1000 genomes]
rs11188395	0.85[EUR][1000 genomes]
rs11188402	0.83[EUR][1000 genomes]
rs11188434	1.00[JPT][hapmap]
rs12098522	0.83[CHD][hapmap];0.91[JPT][hapmap];0.85[MEX][hapmap]
rs17110981	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17110984	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17110999	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1933168	0.90[JPT][hapmap]
rs2105359	0.84[CHD][hapmap];0.91[JPT][hapmap]
rs2986401	0.80[MEX][hapmap]
rs3829157	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs501819	0.80[MEX][hapmap]
rs535449	0.80[MEX][hapmap]
rs56055942	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56085433	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56193579	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6584020	0.90[JPT][hapmap]
rs7072291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7076303	0.84[EUR][1000 genomes]
rs7089081	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7096248	0.91[JPT][hapmap]
rs73327043	0.84[EUR][1000 genomes]
rs73327044	0.84[EUR][1000 genomes]
rs74150942	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7895441	0.85[TSI][hapmap]
rs7895976	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs7897091	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7899286	0.85[TSI][hapmap]
rs7906450	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs7908923	0.84[CHD][hapmap];0.91[JPT][hapmap];0.84[TSI][hapmap]

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	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10509689	PDE6C	cis	cerebellum	SCAN
rs10509689	ENTPD1	cis	lymphoblastoid	seeQTL
rs10509689	ZFYVE27	cis	parietal	SCAN
rs10509689	ANKRD2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97335200-97373400	Weak transcription	Psoas Muscle	Psoas
2	chr10:97339600-97351400	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links