Variant report

Variant	rs11004104
Chromosome Location	chr10:55918359-55918360
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10458669	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10733925	1.00[JPT][hapmap]
rs10763074	1.00[JPT][hapmap]
rs10763075	0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10763076	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10825244	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10825245	0.85[ASN][1000 genomes]
rs11004105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs11004106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11004107	1.00[ASW][hapmap];1.00[CEU][hapmap];0.97[GIH][hapmap];0.93[LWK][hapmap];0.83[TSI][hapmap];0.84[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11004141	0.83[TSI][hapmap]
rs11527495	0.87[ASN][1000 genomes]
rs12218327	1.00[CEU][hapmap]
rs12764713	1.00[JPT][hapmap]
rs12781225	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16905686	0.83[TSI][hapmap]
rs16905760	1.00[JPT][hapmap]
rs4272709	1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.87[ASN][1000 genomes]
rs4295959	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4348806	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4403715	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap]
rs4447073	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.87[ASN][1000 genomes]
rs4450095	0.86[ASN][1000 genomes]
rs4495798	0.83[CHD][hapmap];1.00[JPT][hapmap]
rs4509671	1.00[JPT][hapmap]
rs4539221	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4636568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4935502	0.83[TSI][hapmap]
rs4998401	1.00[JPT][hapmap]
rs61858439	0.87[ASN][1000 genomes]
rs7093302	1.00[JPT][hapmap]
rs7907790	1.00[JPT][hapmap]
rs7920089	0.83[CHD][hapmap];1.00[JPT][hapmap]
rs9663427	1.00[JPT][hapmap]
rs9787465	1.00[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap]
rs9787578	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv8667	chr10:55803106-56022647	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv428557	chr10:55815334-55988225	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv870252	chr10:55823123-56029435	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv948730	chr10:55845301-56093271	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1035173	chr10:55847066-56005288	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv467214	chr10:55881720-55948714	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv430232	chr10:55883194-56027294	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv895431	chr10:55898144-55955444	Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv2829924	chr10:55906112-56038831	Weak transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11004104	DKK1	cis	cerebellum	SCAN

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
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