Variant report

Variant	rs824597
Chromosome Location	chr10:25689230-25689231
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 157 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:154)

rs_ID	r²[population]
rs10399962	0.93[JPT][hapmap]
rs10508694	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10741075	0.86[CEU][hapmap];0.86[JPT][hapmap]
rs10741077	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs10764539	1.00[JPT][hapmap]
rs10764543	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10828770	0.86[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap]
rs10828774	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10828775	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10828777	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap]
rs10828778	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10828791	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10828792	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10828793	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10828807	0.93[JPT][hapmap]
rs11014527	0.93[JPT][hapmap];0.88[YRI][hapmap];0.82[ASN][1000 genomes]
rs11014528	0.84[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11014529	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11014530	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11014550	1.00[JPT][hapmap]
rs11014553	1.00[JPT][hapmap]
rs11014554	1.00[JPT][hapmap]
rs11014558	0.93[JPT][hapmap]
rs11014559	0.93[JPT][hapmap]
rs1122775	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1122776	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1148154	0.92[CHB][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap]
rs11818261	1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[ASN][1000 genomes]
rs12240665	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12249852	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12251868	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12251917	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12254479	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12256778	0.82[ASN][1000 genomes]
rs12256851	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12258359	0.82[ASN][1000 genomes]
rs12258665	0.82[ASN][1000 genomes]
rs12258671	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12259043	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12259696	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12358447	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12762462	1.00[JPT][hapmap]
rs12764320	0.82[ASN][1000 genomes]
rs12766749	0.82[ASN][1000 genomes]
rs12773262	1.00[JPT][hapmap]
rs1329259	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1329263	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1329264	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1329265	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1340002	0.93[JPT][hapmap]
rs1341963	0.92[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1341964	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1341966	0.81[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1410932	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1413397	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1576317	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1576318	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1576320	0.90[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1576321	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1590836	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1591249	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1591250	0.85[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1612200	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1626372	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1628986	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1630323	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1632593	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16925850	0.86[JPT][hapmap]
rs1754251	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1754253	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754254	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754255	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754256	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754257	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1754258	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754260	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754264	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754265	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754268	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754269	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1754271	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1760716	0.84[CEU][hapmap];0.92[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1760718	0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs1760726	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1760727	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760728	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760729	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760730	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760733	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760734	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760735	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760755	0.83[ASN][1000 genomes]
rs1760758	0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1760759	0.81[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1760762	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1760763	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760764	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760765	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1760766	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1760767	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs1773607	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773608	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773609	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773612	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1773614	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773616	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773617	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1773618	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773622	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773623	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773625	0.86[CHB][hapmap];0.90[CHD][hapmap];0.86[GIH][hapmap];0.93[JPT][hapmap];0.81[TSI][hapmap]
rs1773648	0.83[ASN][1000 genomes]
rs1773649	0.86[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1773650	0.86[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1773651	0.83[ASN][1000 genomes]
rs1773689	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1773690	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1812401	0.84[CHB][hapmap]
rs1855461	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2262989	0.83[ASN][1000 genomes]
rs2795044	0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs2807245	0.84[ASN][1000 genomes]
rs2807248	0.86[CHB][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap]
rs2807253	0.86[CHB][hapmap];0.86[CHD][hapmap];0.93[JPT][hapmap]
rs2807255	0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs35663899	0.82[ASN][1000 genomes]
rs35973294	0.82[ASN][1000 genomes]
rs4351726	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4431923	1.00[JPT][hapmap]
rs476972	0.83[ASN][1000 genomes]
rs489052	0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs489186	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs495338	0.86[CHB][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.84[ASN][1000 genomes]
rs495456	0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs509285	0.86[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap]
rs516071	0.86[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs518751	0.80[ASN][1000 genomes]
rs541206	0.86[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs543850	0.86[CHB][hapmap];0.90[CHD][hapmap];0.93[JPT][hapmap]
rs558947	0.86[JPT][hapmap]
rs573812	0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7079892	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7090972	0.82[ASN][1000 genomes]
rs7091686	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7094439	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs722537	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs824145	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs824146	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs824590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs824592	0.84[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs824593	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs824598	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824599	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs862192	0.92[CHB][hapmap];0.93[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761583	chr10:25525657-25722444	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3349863	chr10:25614571-25946379	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv550226	chr10:25653017-25693426	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs824597	ST7OT3	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25687200-25697800	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links