Variant report

Variant	rs13146384
Chromosome Location	chr4:173462105-173462106
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11132947	0.86[EUR][1000 genomes]
rs11132950	0.89[AFR][1000 genomes]
rs11939125	0.80[EUR][1000 genomes]
rs13103453	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs13107068	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13113495	0.87[EUR][1000 genomes]
rs13118509	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs13118772	0.90[CEU][hapmap];0.90[GIH][hapmap];0.92[TSI][hapmap]
rs13120408	0.89[AFR][1000 genomes]
rs13122643	0.88[EUR][1000 genomes]
rs13130915	0.86[ASW][hapmap];0.92[MKK][hapmap]
rs13140679	0.90[CEU][hapmap]
rs13142236	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs13146091	0.90[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs13150199	0.86[ASW][hapmap];1.00[YRI][hapmap]
rs13150574	0.94[CEU][hapmap];0.90[GIH][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap]
rs1455122	1.00[CEU][hapmap]
rs1455123	0.95[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs1551446	0.95[CEU][hapmap];0.90[GIH][hapmap];0.96[TSI][hapmap]
rs17233636	0.95[CEU][hapmap]
rs2085207	1.00[CEU][hapmap]
rs2124204	0.95[CEU][hapmap];0.96[TSI][hapmap]
rs2332516	0.95[CEU][hapmap];0.90[GIH][hapmap];0.96[TSI][hapmap]
rs337981	0.85[CEU][hapmap]
rs337994	0.90[CEU][hapmap];0.80[EUR][1000 genomes]
rs338005	0.95[CEU][hapmap]
rs338047	0.90[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs338048	0.94[CEU][hapmap]
rs338049	0.81[CEU][hapmap]
rs338052	0.95[CEU][hapmap]
rs338054	0.94[CEU][hapmap]
rs338056	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs538624	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs6812783	0.94[CEU][hapmap]
rs7656178	0.95[CEU][hapmap];1.00[TSI][hapmap]
rs7659363	0.90[CEU][hapmap];0.90[GIH][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs7669065	0.90[CEU][hapmap];0.81[EUR][1000 genomes]
rs7686403	0.95[CEU][hapmap]
rs7686995	0.95[CEU][hapmap];1.00[TSI][hapmap]
rs7694525	0.95[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031592	chr4:173112542-173662991	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv537359	chr4:173112542-173662991	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv534293	chr4:173121379-173606082	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1031327	chr4:173306405-173465248	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13146384	WDR17	cis	cerebellum	SCAN
rs13146384	GALNTL6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173461600-173462200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr4:173462000-173462400	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr4:173462000-173463600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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