Variant report

Variant	rs6493687
Chromosome Location	chr15:54826063-54826064
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10152437	0.85[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs10152907	0.81[CHB][hapmap]
rs10468008	0.89[CEU][hapmap]
rs10468009	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10518767	0.84[CEU][hapmap]
rs11071072	0.92[CEU][hapmap]
rs11071087	0.89[CEU][hapmap]
rs11639005	0.89[CEU][hapmap];0.91[GIH][hapmap];0.88[TSI][hapmap]
rs11639014	0.89[CEU][hapmap]
rs12443186	0.89[CEU][hapmap]
rs12902108	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12915430	0.85[CEU][hapmap]
rs12916571	0.85[CEU][hapmap]
rs12916626	0.89[CEU][hapmap]
rs1356858	0.88[CEU][hapmap]
rs16974753	1.00[CEU][hapmap]
rs1818705	0.87[MEX][hapmap]
rs1818708	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2414326	0.81[CHB][hapmap]
rs2456976	1.00[CEU][hapmap]
rs2553218	0.95[CHB][hapmap];0.87[MEX][hapmap];0.86[MKK][hapmap]
rs2899546	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2947007	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4109295	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4776234	0.85[CEU][hapmap]
rs495769	1.00[CEU][hapmap]
rs533450	0.96[CEU][hapmap]
rs537389	0.82[CEU][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap]
rs540090	1.00[CEU][hapmap]
rs546169	1.00[CEU][hapmap]
rs589611	1.00[CEU][hapmap];0.81[TSI][hapmap]
rs605869	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.95[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs640442	0.96[CEU][hapmap]
rs8023595	0.83[MEX][hapmap]
rs8032415	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs8039515	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9302181	0.89[CEU][hapmap]
rs9920919	0.81[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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	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
3	nsv904236	chr15:54820897-54912439	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6493687	TNFAIP8L3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:54811000-54869600	Weak transcription	Aorta	Aorta
2	chr15:54825600-54828400	Strong transcription	Fetal Lung	lung

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