Variant report

Variant	rs16870654
Chromosome Location	chr4:21267346-21267347
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10006105	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10018523	1.00[CEU][hapmap]
rs10516376	0.89[CEU][hapmap]
rs10516377	0.89[CEU][hapmap]
rs11936275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs11943249	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12640602	1.00[CEU][hapmap]
rs12642021	1.00[CEU][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes]
rs12648055	1.00[CEU][hapmap]
rs1364834	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1425333	0.89[CEU][hapmap];0.80[MEX][hapmap];0.82[TSI][hapmap]
rs1425336	0.88[CEU][hapmap]
rs16867638	0.89[CEU][hapmap]
rs16870639	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16870672	1.00[CEU][hapmap];0.91[TSI][hapmap]
rs17458108	0.89[CEU][hapmap]
rs1967398	0.89[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.89[JPT][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap]
rs2162081	0.89[CHD][hapmap];0.80[MEX][hapmap];0.82[ASN][1000 genomes]
rs2322881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs59556101	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6448042	1.00[CEU][hapmap]
rs6448043	1.00[CEU][hapmap]
rs6821700	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]
rs6832734	0.89[CEU][hapmap]
rs6839686	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs6839994	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs73249526	0.80[EUR][1000 genomes]
rs73249540	0.80[EUR][1000 genomes]
rs7669586	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9998813	0.90[CEU][hapmap];0.80[EUR][1000 genomes]
rs9999019	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]

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	nsv1014941	chr4:20611726-21345226	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv537053	chr4:20611726-21345226	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1013365	chr4:20834054-21609078	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16870654	LDB2	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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