Variant report

Variant	rs10117627
Chromosome Location	chr9:95203953-95203954
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 143 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs10114912	0.80[EUR][1000 genomes]
rs10115290	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10116241	0.95[ASN][1000 genomes]
rs10116813	0.84[AFR][1000 genomes]
rs10117680	0.84[EUR][1000 genomes]
rs10118107	0.85[EUR][1000 genomes]
rs10118939	0.81[EUR][1000 genomes]
rs10121495	0.91[ASN][1000 genomes]
rs10125450	0.86[EUR][1000 genomes]
rs10283572	0.90[ASN][1000 genomes]
rs10429459	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10453241	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10514815	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1053441	0.93[ASN][1000 genomes]
rs1053446	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10739927	0.88[ASN][1000 genomes]
rs10739928	0.84[AFR][1000 genomes]
rs1075397	0.86[EUR][1000 genomes]
rs10761153	0.91[ASN][1000 genomes]
rs10761154	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10761155	0.85[EUR][1000 genomes]
rs10761158	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10761160	0.97[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs10761161	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10761163	0.80[EUR][1000 genomes]
rs10761164	0.84[EUR][1000 genomes]
rs10820964	0.86[ASN][1000 genomes]
rs10820965	0.85[AFR][1000 genomes]
rs10820968	0.83[AFR][1000 genomes]
rs10820969	0.91[ASN][1000 genomes]
rs10820971	0.92[ASN][1000 genomes]
rs10820980	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs10820989	0.84[EUR][1000 genomes]
rs10992291	0.86[ASN][1000 genomes]
rs10992303	0.81[AFR][1000 genomes]
rs10992304	0.82[AFR][1000 genomes]
rs10992322	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10992340	0.96[ASN][1000 genomes]
rs10992347	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992349	0.89[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs10992365	0.84[EUR][1000 genomes]
rs10992366	0.80[EUR][1000 genomes]
rs1121978	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1133908	0.88[ASN][1000 genomes]
rs11788523	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs11789163	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11792019	0.96[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11794346	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs11795122	0.93[ASN][1000 genomes]
rs12336415	0.96[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12336884	0.84[EUR][1000 genomes]
rs12338938	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12341817	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12342019	0.94[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12343820	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12348488	0.80[ASN][1000 genomes]
rs12353096	0.86[ASN][1000 genomes]
rs13301492	0.84[EUR][1000 genomes]
rs13301537	0.93[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs13301652	0.86[EUR][1000 genomes]
rs1535754	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1535756	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1924243	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1924244	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980848	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2007837	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2025388	0.91[ASN][1000 genomes]
rs2026585	0.84[EUR][1000 genomes]
rs2094281	0.82[EUR][1000 genomes]
rs2104533	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2274966	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2296666	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2296667	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2516567	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2761677	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2761679	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2895219	0.86[EUR][1000 genomes]
rs3118008	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3739606	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3780347	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3927488	0.86[EUR][1000 genomes]
rs4743873	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs4743874	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4744133	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4744134	0.93[ASN][1000 genomes]
rs4744135	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4744136	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4744137	0.81[EUR][1000 genomes]
rs4744138	0.81[EUR][1000 genomes]
rs4744139	0.83[EUR][1000 genomes]
rs6479416	0.88[ASN][1000 genomes]
rs6479417	0.88[ASN][1000 genomes]
rs6479419	0.91[ASN][1000 genomes]
rs6479420	0.91[ASN][1000 genomes]
rs6479422	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6479423	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7020874	0.91[ASN][1000 genomes]
rs7023004	0.91[ASN][1000 genomes]
rs7026361	0.91[ASN][1000 genomes]
rs7029939	0.80[EUR][1000 genomes]
rs7030920	0.82[AFR][1000 genomes]
rs7031567	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7033979	0.93[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7045409	0.96[ASN][1000 genomes]
rs7045572	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7047089	0.91[ASN][1000 genomes]
rs710162	0.92[ASN][1000 genomes]
rs747628	0.81[EUR][1000 genomes]
rs747629	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7847534	0.81[EUR][1000 genomes]
rs7847929	0.92[ASN][1000 genomes]
rs7849788	0.83[EUR][1000 genomes]
rs7849927	0.85[EUR][1000 genomes]
rs7850432	0.91[ASN][1000 genomes]
rs7850528	0.97[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7853859	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7856204	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7860774	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7860786	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7863049	0.83[EUR][1000 genomes]
rs7863234	0.96[ASN][1000 genomes]
rs7863406	0.88[ASN][1000 genomes]
rs7864575	0.81[EUR][1000 genomes]
rs7864630	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7868013	0.92[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7868640	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7869742	0.93[ASN][1000 genomes]
rs7872375	0.88[ASN][1000 genomes]
rs7872610	0.81[EUR][1000 genomes]
rs7872644	0.86[EUR][1000 genomes]
rs7873390	0.84[EUR][1000 genomes]
rs7873397	0.98[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7873932	0.88[ASN][1000 genomes]
rs8067	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs927865	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9299404	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9299405	0.81[EUR][1000 genomes]
rs968040	0.81[EUR][1000 genomes]
rs987553	0.81[EUR][1000 genomes]

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	nsv1050845	chr9:94687959-95312406	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv893573	chr9:94974188-95355719	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv1047337	chr9:95105638-95347484	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1049599	chr9:95170139-95265558	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10117627	CENPP	cis	Esophagus Muscularis	GTEx

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95201600-95204000	Enhancers	Primary T cells fromperipheralblood	blood
2	chr9:95202200-95206800	Weak transcription	NHEK	skin
3	chr9:95202200-95207000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:95202600-95206800	Weak transcription	HMEC	breast
5	chr9:95203000-95208400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr9:95203800-95204000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links