Variant report

Variant	rs7331934
Chromosome Location	chr13:29698637-29698638
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1109007	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1467578	0.93[CHB][hapmap]
rs1467579	0.94[CHB][hapmap]
rs1536718	0.94[CHB][hapmap];0.81[JPT][hapmap]
rs1536719	0.94[CHB][hapmap]
rs1536720	0.94[CHB][hapmap]
rs1575301	0.94[CHB][hapmap]
rs1887749	0.85[ASN][1000 genomes]
rs1887751	0.94[CHB][hapmap]
rs1887752	0.94[CHB][hapmap]
rs1927837	0.84[CEU][hapmap]
rs1927838	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927840	0.94[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1952421	0.94[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs2025972	0.88[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs2149322	0.94[CHB][hapmap]
rs2182990	0.94[CHB][hapmap]
rs2475533	0.94[CHB][hapmap]
rs2475534	0.94[CHB][hapmap]
rs2475537	0.93[CHB][hapmap]
rs2479798	0.93[CHB][hapmap]
rs2479801	0.92[CHB][hapmap]
rs2479803	0.94[CHB][hapmap]
rs2987345	0.94[CHB][hapmap]
rs4238115	0.94[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs4365146	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4432107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4769002	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4769681	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6490355	0.94[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs685778	0.94[CHB][hapmap]
rs7324366	0.94[CHB][hapmap]
rs7331539	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7332351	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7334488	0.94[CHB][hapmap]
rs7981689	0.94[CHB][hapmap]
rs7985792	0.94[CHB][hapmap]
rs7987444	0.94[CHB][hapmap]
rs7994251	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs7994936	0.82[ASN][1000 genomes]
rs7995588	0.82[JPT][hapmap]
rs7999357	0.87[ASN][1000 genomes]
rs7999521	0.87[ASN][1000 genomes]
rs9314934	0.94[CHB][hapmap]
rs9506098	0.94[CHB][hapmap]
rs9506099	0.94[CHB][hapmap];0.81[JPT][hapmap]
rs9506100	0.93[CHB][hapmap]
rs9506102	0.94[CHB][hapmap]
rs9506103	0.94[CHB][hapmap];0.81[JPT][hapmap]
rs9506105	0.93[CHB][hapmap]
rs9506110	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs9508271	0.94[CHB][hapmap]
rs9508279	0.94[CHB][hapmap]
rs9508281	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9508284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9508285	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9508288	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9579284	0.94[CHB][hapmap];0.83[CHD][hapmap];0.80[JPT][hapmap];0.83[ASN][1000 genomes]
rs9579290	0.89[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[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	nsv533835	chr13:29141132-29962069	Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	esv3406145	chr13:29616606-29917459	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7331934	HSPA5	trans	brain	seeQTL
rs7331934	C13orf26	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:29692600-29703400	Weak transcription	Aorta	Aorta
2	chr13:29692600-29703800	Weak transcription	Left Ventricle	heart
3	chr13:29692600-29705600	Weak transcription	Right Ventricle	heart
4	chr13:29697800-29699200	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr13:29697800-29700200	Enhancers	Fetal Heart	heart
6	chr13:29698200-29699800	Enhancers	Liver	Liver
7	chr13:29698600-29699600	Enhancers	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links