Variant report

Variant	rs11024574
Chromosome Location	chr11:18258018-18258019
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10766463	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10832904	0.92[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10832908	0.85[CEU][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11024553	0.96[CEU][hapmap];1.00[JPT][hapmap];0.91[MKK][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024562	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024566	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024576	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024577	0.96[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11024578	0.85[CEU][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11601002	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12361253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12364058	0.96[CEU][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12364776	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12791694	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1915391	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2168363	0.85[CEU][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2445175	0.82[GIH][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap]
rs2445218	0.89[EUR][1000 genomes]
rs4757627	0.92[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4757628	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4757629	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4757630	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67006796	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67712345	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7103794	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7117484	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7117890	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72881516	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935726	0.81[AMR][1000 genomes];0.81[EUR][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	nsv949248	chr11:17791822-18692687	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv428569	chr11:18194030-18350869	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11024574	TPH1	cis	cerebellum	SCAN
rs11024574	SAA4	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:18257000-18258800	Flanking Active TSS	HepG2	liver
2	chr11:18257400-18258800	Active TSS	Liver	Liver
3	chr11:18258000-18259400	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links