Variant report

Variant	rs9535699
Chromosome Location	chr13:52077993-52077994
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:52076183..52079508-chr13:52080002..52082904,3	MCF-7	breast:
2	chr13:52026001..52029442-chr13:52076697..52078499,4	MCF-7	breast:

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

Extended variants
information (count: 70 )
Associated
traits (count: 7 )

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

rs_ID	r²[population]
rs17075688	0.89[EUR][1000 genomes]
rs17194948	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs17195020	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs17597531	1.00[ASW][hapmap]
rs2026526	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2026527	0.90[EUR][1000 genomes]
rs2277443	1.00[ASW][hapmap];0.87[GIH][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap]
rs2408363	1.00[AFR][1000 genomes]
rs3908968	1.00[ASW][hapmap]
rs4555048	1.00[ASW][hapmap]
rs4628860	1.00[AFR][1000 genomes]
rs4943003	1.00[ASW][hapmap]
rs56017742	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs6561638	1.00[ASW][hapmap]
rs73197809	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73197821	0.91[EUR][1000 genomes]
rs73197824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73197826	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7321642	0.82[CHB][hapmap]
rs7328715	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7335122	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs7335144	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7337450	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7989674	0.88[EUR][1000 genomes]
rs7989850	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]
rs7998084	0.90[CEU][hapmap];0.96[TSI][hapmap];0.93[EUR][1000 genomes]
rs8001311	0.89[EUR][1000 genomes]
rs9316541	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9316545	0.90[CEU][hapmap];0.85[CHB][hapmap];0.92[EUR][1000 genomes]
rs9316546	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9526757	0.90[CEU][hapmap]
rs9526759	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9526761	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9526764	0.89[CEU][hapmap];0.85[CHB][hapmap];0.91[EUR][1000 genomes]
rs9526768	0.90[EUR][1000 genomes]
rs9526786	1.00[ASW][hapmap]
rs9526788	1.00[ASW][hapmap]
rs9535646	1.00[CEU][hapmap]
rs9535652	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs9535655	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs9535660	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9535661	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[GIH][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9535662	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9535663	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9535665	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.82[CHD][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9535670	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]
rs9535671	0.91[EUR][1000 genomes]
rs9535672	0.89[EUR][1000 genomes]
rs9535677	0.89[EUR][1000 genomes]
rs9535678	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9535679	0.89[EUR][1000 genomes]
rs9535680	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9535682	0.87[EUR][1000 genomes]
rs9535683	0.91[EUR][1000 genomes]
rs9535687	0.91[EUR][1000 genomes]
rs9535688	0.91[EUR][1000 genomes]
rs9535689	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9535690	0.93[EUR][1000 genomes]
rs9535693	0.93[EUR][1000 genomes]
rs9535694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9535696	0.89[CEU][hapmap];0.93[EUR][1000 genomes]
rs9535697	0.89[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9535717	1.00[ASW][hapmap]
rs9535722	1.00[ASW][hapmap]
rs9563046	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[AFR][1000 genomes]
rs9568600	0.89[CEU][hapmap];0.91[TSI][hapmap];0.89[EUR][1000 genomes]
rs9568603	0.90[CEU][hapmap];0.92[TSI][hapmap];0.89[EUR][1000 genomes]
rs9568608	0.92[EUR][1000 genomes]
rs9568612	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9634842	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs9535699	CKAP2	cis	parietal	SCAN
rs9535699	WDFY2	cis	parietal	SCAN
rs9535699	DDX26	cis	multi-tissue	Pritchard
rs9535699	WDFY2	cis	cerebellum	SCAN
rs9535699	HNRNPA1L2	cis	cerebellum	SCAN
rs9535699	ITM2B	cis	cerebellum	SCAN
rs9535699	INTS6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52076800-52079400	Weak transcription	HSMMtube	muscle
2	chr13:52077000-52078000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links