Variant report

Variant	rs10899064
Chromosome Location	chr11:74760802-74760803
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 15 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10793112	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899059	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10899060	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10899061	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10899065	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11236296	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11236303	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11236304	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11236306	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11236307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236309	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236310	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236311	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236313	0.93[EUR][1000 genomes]
rs11600328	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12223822	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12226763	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4456280	0.93[EUR][1000 genomes]
rs4531492	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4554917	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4944970	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4944971	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56885894	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7106757	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7109716	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7482760	0.83[AMR][1000 genomes];0.99[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	nsv897918	chr11:74757641-74798928	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:15)

SNP	Gene	Cis/trans	Tissue	Source
rs10899064	XRRA1	Cis_1M	lymphoblastoid	RTeQTL
rs10899064	XRRA1	cis	Nerve Tibial	GTEx
rs10899064	XRRA1	cis	Esophagus Muscularis	GTEx
rs10899064	XRRA1	cis	Thyroid	GTEx
rs10899064	XRRA1	cis	Heart Left Ventricle	GTEx
rs10899064	XRRA1	cis	Stomach	GTEx
rs10899064	XRRA1	cis	Skin Sun Exposed Lower leg	GTEx
rs10899064	XRRA1	cis	Esophagus Mucosa	GTEx
rs10899064	XRRA1	cis	Artery Tibial	GTEx
rs10899064	XRRA1	cis	Whole Blood	GTEx
rs10899064	XRRA1	cis	Artery Aorta	GTEx
rs10899064	XRRA1	cis	Adipose Subcutaneous	GTEx
rs10899064	RP11-147I3.1	cis	Thyroid	GTEx
rs10899064	XRRA1	cis	Muscle Skeletal	GTEx
rs10899064	XRRA1	cis	lung	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74756200-74761200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:74757000-74762200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr11:74759400-74761800	Enhancers	GM12878-XiMat	blood
4	chr11:74760400-74761200	Enhancers	Primary B cells from cord blood	blood
5	chr11:74760400-74762200	Enhancers	Primary B cells from peripheral blood	blood

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