Variant report

Variant	rs12419176
Chromosome Location	chr11:57706711-57706712
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1113334	0.91[EUR][1000 genomes]
rs1113335	0.91[EUR][1000 genomes]
rs11600060	0.86[CEU][hapmap]
rs11601202	0.82[EUR][1000 genomes]
rs11601223	0.92[EUR][1000 genomes]
rs11601663	0.82[EUR][1000 genomes]
rs11601841	0.86[CEU][hapmap]
rs11602442	0.94[EUR][1000 genomes]
rs11604473	0.86[CEU][hapmap]
rs11604630	0.86[CEU][hapmap]
rs11608016	0.82[EUR][1000 genomes]
rs12421773	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12788836	0.94[EUR][1000 genomes]
rs12790525	0.95[CEU][hapmap]
rs12792638	0.91[EUR][1000 genomes]
rs12801976	0.92[EUR][1000 genomes]
rs12803905	0.93[EUR][1000 genomes]
rs1374570	0.82[CHB][hapmap]
rs1376489	0.95[CEU][hapmap];0.80[TSI][hapmap]
rs1397273	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17152376	0.86[CEU][hapmap]
rs1814059	0.86[CEU][hapmap]
rs2089747	0.91[EUR][1000 genomes]
rs2441952	0.83[CEU][hapmap];0.83[MEX][hapmap]
rs34015013	0.85[EUR][1000 genomes]
rs34563263	0.94[EUR][1000 genomes]
rs34594669	0.94[EUR][1000 genomes]
rs35163247	0.87[EUR][1000 genomes]
rs35713433	0.97[EUR][1000 genomes]
rs35742790	0.85[EUR][1000 genomes]
rs4509781	0.91[CEU][hapmap]
rs56055377	0.94[EUR][1000 genomes]
rs609154	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61905309	0.92[EUR][1000 genomes]
rs66813766	0.94[EUR][1000 genomes]
rs7109912	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7113760	0.91[CEU][hapmap]
rs7120442	0.86[CEU][hapmap]
rs7121128	0.91[EUR][1000 genomes]
rs7123570	0.97[EUR][1000 genomes]
rs7126334	0.94[EUR][1000 genomes]
rs714942	0.94[EUR][1000 genomes]
rs7926878	0.93[EUR][1000 genomes]
rs7929515	0.82[EUR][1000 genomes]
rs7930102	0.95[CEU][hapmap];0.80[TSI][hapmap]
rs7930234	0.94[EUR][1000 genomes]
rs7934184	0.86[CEU][hapmap]
rs7935428	0.86[CEU][hapmap]
rs7936212	0.94[EUR][1000 genomes]
rs7938062	0.86[CEU][hapmap]
rs7950003	0.87[EUR][1000 genomes]
rs930703	0.86[CEU][hapmap]
rs938011	0.97[EUR][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	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	nsv897589	chr11:57623815-58052357	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12419176	YPEL4	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57703400-57707600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:57706200-57707600	Weak transcription	HepG2	liver

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