Variant report

Variant	rs546169
Chromosome Location	chr15:54795040-54795041
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10152437	0.85[CEU][hapmap]
rs10468008	0.89[CEU][hapmap]
rs10518767	0.84[CEU][hapmap]
rs11071072	0.92[CEU][hapmap]
rs11071087	0.89[CEU][hapmap];0.81[GIH][hapmap]
rs11639005	0.89[CEU][hapmap]
rs11639014	0.89[CEU][hapmap];0.81[GIH][hapmap]
rs11857643	0.82[EUR][1000 genomes]
rs12443186	0.89[CEU][hapmap]
rs12915430	0.85[CEU][hapmap]
rs12916571	0.85[CEU][hapmap]
rs12916626	0.89[CEU][hapmap]
rs1356858	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs16974753	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs2456976	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2899546	1.00[CEU][hapmap]
rs4109295	1.00[CEU][hapmap]
rs4776234	0.85[CEU][hapmap]
rs495769	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[GIH][hapmap];0.91[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs533450	0.96[CEU][hapmap];0.87[GIH][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs537389	0.82[CEU][hapmap]
rs540090	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs543451	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs589611	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs605869	1.00[CEU][hapmap]
rs640442	0.96[CEU][hapmap];0.86[GIH][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6493687	1.00[CEU][hapmap]
rs8032415	0.89[CEU][hapmap]
rs8039515	0.88[CEU][hapmap]
rs9302181	0.89[CEU][hapmap];0.81[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817539	chr15:54132584-55095235	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv904233	chr15:54703195-54797177	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv457153	chr15:54705902-54795040	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv569504	chr15:54705902-54795040	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv904235	chr15:54710873-54795040	Weak transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv569506	chr15:54715550-54796592	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1038660	chr15:54756184-55039913	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs546169	DYX1C1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:54777800-54810400	Weak transcription	Aorta	Aorta
2	chr15:54794000-54795400	Enhancers	Fetal Lung	lung

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