Variant report

Variant	rs1425333
Chromosome Location	chr4:21255650-21255651
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10006105	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs10018523	0.88[CEU][hapmap];0.92[CHB][hapmap]
rs10516376	1.00[CEU][hapmap]
rs10516377	1.00[CEU][hapmap]
rs11936275	0.89[CEU][hapmap];0.82[TSI][hapmap]
rs11943249	0.89[CEU][hapmap]
rs11943777	0.80[ASN][1000 genomes]
rs11944859	0.89[CEU][hapmap]
rs11944996	0.89[CEU][hapmap]
rs12640602	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs12642021	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12648055	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.80[MEX][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1364834	0.89[CEU][hapmap];1.00[YRI][hapmap]
rs1425336	1.00[CEU][hapmap]
rs16867638	1.00[CEU][hapmap]
rs16870621	0.89[CEU][hapmap]
rs16870639	0.89[CEU][hapmap];0.87[AMR][1000 genomes]
rs16870654	0.89[CEU][hapmap];0.80[MEX][hapmap];0.82[TSI][hapmap]
rs16870672	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.81[TSI][hapmap]
rs1967398	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[LWK][hapmap];0.88[MEX][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap]
rs2162081	0.89[CEU][hapmap];0.87[MEX][hapmap]
rs2322881	0.89[CEU][hapmap]
rs59556101	0.87[AMR][1000 genomes]
rs6448042	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs6448043	0.89[CEU][hapmap];0.92[CHB][hapmap]
rs6821700	0.89[CEU][hapmap]
rs6823638	0.89[CEU][hapmap]
rs6832734	1.00[CEU][hapmap]
rs6839686	0.89[CEU][hapmap];0.86[MEX][hapmap];0.81[TSI][hapmap]
rs6839994	0.89[CEU][hapmap];0.80[MEX][hapmap];0.82[TSI][hapmap]
rs6858323	0.80[CEU][hapmap]
rs73249526	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7669586	0.89[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9998813	0.80[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9999019	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	nsv1002610	chr4:21192993-21261812	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1425333	LDB2	cis	cerebellum	SCAN

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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