Variant report

Variant	rs7989850
Chromosome Location	chr13:52045094-52045095
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:52025794..52034237-chr13:52040132..52048046,20	K562	blood:
2	chr13:52025793..52028352-chr13:52043580..52045211,2	MCF-7	breast:
3	chr13:52026056..52028727-chr13:52040719..52045413,5	K562	blood:

Variant related genes	Relation type
ENSG00000102786	Chromatin interaction
ENSG00000236778	Chromatin interaction
ENSG00000224892	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs17075688	0.98[EUR][1000 genomes]
rs17194948	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs17195020	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2026526	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2026527	0.94[EUR][1000 genomes]
rs2274061	0.82[CEU][hapmap]
rs2274929	0.82[CEU][hapmap]
rs2408363	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs3825524	0.82[CEU][hapmap]
rs56017742	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6561634	0.80[EUR][1000 genomes]
rs73197809	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73197821	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73197824	0.91[EUR][1000 genomes]
rs73197826	0.96[EUR][1000 genomes]
rs7321642	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7328715	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7335122	0.89[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7335144	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7337450	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7984510	1.00[YRI][hapmap]
rs7989674	0.97[EUR][1000 genomes]
rs7996243	0.82[CEU][hapmap]
rs7998084	1.00[CEU][hapmap];0.82[GIH][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes]
rs8001311	0.98[EUR][1000 genomes]
rs9316541	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9316545	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9316546	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9526752	0.81[CEU][hapmap]
rs9526758	0.94[ASN][1000 genomes]
rs9526759	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9526761	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9526764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9526768	0.91[EUR][1000 genomes]
rs9535645	0.82[CEU][hapmap]
rs9535646	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs9535652	0.90[CEU][hapmap];0.85[CHB][hapmap];0.93[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9535653	0.80[CEU][hapmap]
rs9535655	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9535660	0.89[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9535661	0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9535662	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9535663	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9535665	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9535669	0.80[EUR][1000 genomes]
rs9535670	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535671	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535672	0.98[EUR][1000 genomes]
rs9535674	0.80[EUR][1000 genomes]
rs9535677	0.98[EUR][1000 genomes]
rs9535678	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535679	0.98[EUR][1000 genomes]
rs9535680	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535682	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535683	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9535687	0.95[EUR][1000 genomes]
rs9535688	0.95[EUR][1000 genomes]
rs9535689	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9535690	0.94[EUR][1000 genomes]
rs9535693	0.94[EUR][1000 genomes]
rs9535694	0.91[EUR][1000 genomes]
rs9535696	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9535697	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[EUR][1000 genomes]
rs9535699	0.90[CEU][hapmap];0.85[CHB][hapmap];0.82[CHD][hapmap];0.88[MEX][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes]
rs9563046	0.90[CEU][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs9568600	1.00[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs9568603	1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs9568608	0.96[EUR][1000 genomes]
rs9568612	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs9634842	0.87[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7989850	WDFY2	cis	parietal	SCAN
rs7989850	HNRNPA1L2	cis	cerebellum	SCAN
rs7989850	ITM2B	cis	cerebellum	SCAN
rs7989850	DDX26	cis	multi-tissue	Pritchard
rs7989850	CKAP2	cis	parietal	SCAN
rs7989850	INTS6	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52031800-52045400	Weak transcription	Primary B cells from cord blood	blood
2	chr13:52041800-52052600	Weak transcription	Pancreas	Pancrea
3	chr13:52045000-52045200	Flanking Active TSS	Liver	Liver
4	chr13:52045000-52045400	Enhancers	HepG2	liver

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