Variant report

Variant	rs11186955
Chromosome Location	chr10:94138671-94138672
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10786036	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10882029	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs10882034	0.82[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap]
rs10882039	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs10882053	0.93[EUR][1000 genomes]
rs10882057	0.85[EUR][1000 genomes]
rs10882058	0.85[EUR][1000 genomes]
rs11186848	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs11186851	0.82[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs11186872	0.82[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.82[MKK][hapmap]
rs11186972	0.86[EUR][1000 genomes]
rs11186976	0.88[EUR][1000 genomes]
rs11594578	0.91[EUR][1000 genomes]
rs11594882	0.88[EUR][1000 genomes]
rs12220376	0.83[EUR][1000 genomes]
rs2260311	0.85[EUR][1000 genomes]
rs3980562	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6583810	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7089099	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7098170	0.82[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs730075	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs7897267	0.91[EUR][1000 genomes]
rs7917088	0.82[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs932820	0.82[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs9804247	0.82[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.80[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv508600	chr10:94115025-94231917	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	esv1009764	chr10:94134254-94139324	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
4	nsv975013	chr10:94137766-94200367	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs11186955	ADRA2C	trans	brain	seeQTL
rs11186955	CYP2C19	cis	cerebellum	SCAN
rs11186955	MARCH5	cis	multi-tissue	Pritchard
rs11186955	CYP26A1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94138400-94140400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links