Variant report

Variant	rs10867840
Chromosome Location	chr9:84892263-84892264
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10117890	0.94[ASN][1000 genomes]
rs10123309	0.94[ASN][1000 genomes]
rs10780541	0.87[ASN][1000 genomes]
rs10867832	0.87[ASN][1000 genomes]
rs10867834	0.87[ASN][1000 genomes]
rs10867835	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10867836	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10867837	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10867839	0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs10867844	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11139538	0.91[ASN][1000 genomes]
rs11139554	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11794308	0.91[ASN][1000 genomes]
rs1200755	0.81[ASN][1000 genomes]
rs1327254	0.84[ASN][1000 genomes]
rs1330834	0.90[ASN][1000 genomes]
rs1411668	0.89[ASN][1000 genomes]
rs1888327	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1890344	0.93[ASN][1000 genomes]
rs1929097	0.90[ASN][1000 genomes]
rs1933577	0.98[ASN][1000 genomes]
rs1933580	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1933582	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1933583	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1933584	0.90[ASN][1000 genomes]
rs1933586	0.90[ASN][1000 genomes]
rs2038995	0.86[ASN][1000 genomes]
rs2767709	0.86[ASN][1000 genomes]
rs2767717	0.81[EUR][1000 genomes]
rs2788106	0.89[ASN][1000 genomes]
rs2788107	0.89[ASN][1000 genomes]
rs2788110	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2788112	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2788113	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2993516	0.90[ASN][1000 genomes]
rs35064221	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4263847	0.91[ASN][1000 genomes]
rs4276765	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4338186	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4489388	0.87[ASN][1000 genomes]
rs4563967	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4877229	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4877231	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4877691	0.89[ASN][1000 genomes]
rs57058080	0.83[ASN][1000 genomes]
rs6559656	0.91[ASN][1000 genomes]
rs6559659	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7020546	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7021352	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7025964	0.84[ASN][1000 genomes]
rs7027988	0.89[ASN][1000 genomes]
rs7047870	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7848262	0.89[ASN][1000 genomes]
rs7848263	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7848823	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7849168	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7852603	0.88[ASN][1000 genomes]
rs7857885	0.98[ASN][1000 genomes]
rs7859164	0.91[ASN][1000 genomes]
rs7859493	0.91[ASN][1000 genomes]
rs7861490	0.87[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	nsv1049305	chr9:84667596-84918690	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv893507	chr9:84799537-85097651	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10867840	C9orf64	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:84890600-84899600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:84890800-84899800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr9:84891000-84896000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr9:84892000-84892600	Enhancers	Primary B cells from peripheral blood	blood

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