Variant report

Variant	rs11914959
Chromosome Location	chr3:156616405-156616406
allele	A/G
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:39)

rs_ID	r²[population]
rs12497777	0.82[JPT][hapmap]
rs1319418	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1320011	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1574980	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs2321291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2321293	0.88[EUR][1000 genomes]
rs237250	0.90[JPT][hapmap]
rs2874488	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs344027	0.83[JPT][hapmap]
rs344073	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs344079	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs344080	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs344082	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs344084	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs344087	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34901284	0.82[JPT][hapmap]
rs386736	0.82[JPT][hapmap]
rs416600	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4234316	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4315647	0.94[CEU][hapmap]
rs453219	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4680311	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4680313	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680314	0.91[EUR][1000 genomes]
rs6441101	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6762708	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs6765353	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6780475	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6783162	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7622309	0.85[EUR][1000 genomes]
rs7638330	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs873337	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826073	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9862338	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9863643	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9870137	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9876148	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9882009	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9883439	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829765	chr3:156568263-156718496	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv3405756	chr3:156616308-156618631	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11914959	LINC00886	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156611600-156621400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:156612000-156621200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:156613000-156617000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:156616000-156616800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr3:156616000-156617000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:156616200-156616600	Enhancers	Muscle Satellite Cultured Cells	--
7	chr3:156616200-156617000	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr3:156616200-156617200	Enhancers	HSMM	muscle
9	chr3:156616200-156617600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:156616200-156617800	Enhancers	HSMMtube	muscle
11	chr3:156616400-156616600	Enhancers	Osteobl	bone

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