Variant report

Variant	rs11646791
Chromosome Location	chr16:79701538-79701539
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:79699171..79703517-chr16:79703807..79706802,5	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs11150187	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11150188	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11150189	0.97[EUR][1000 genomes]
rs11150190	0.91[EUR][1000 genomes]
rs11150191	0.97[EUR][1000 genomes]
rs11644082	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11644758	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11644799	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11644836	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11645076	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11864901	0.97[EUR][1000 genomes]
rs11865979	0.83[EUR][1000 genomes]
rs12149203	0.83[EUR][1000 genomes]
rs12444166	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12449109	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12449161	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1345901	0.88[EUR][1000 genomes]
rs1424231	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16950982	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16950997	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17689024	0.90[EUR][1000 genomes]
rs17689159	0.90[EUR][1000 genomes]
rs17689455	0.90[EUR][1000 genomes]
rs17689625	0.89[EUR][1000 genomes]
rs17767383	0.89[EUR][1000 genomes]
rs17767419	0.90[EUR][1000 genomes]
rs17767491	0.90[EUR][1000 genomes]
rs17767742	0.89[EUR][1000 genomes]
rs17767904	0.89[EUR][1000 genomes]
rs28773265	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3813580	0.89[EUR][1000 genomes]
rs3813582	0.89[EUR][1000 genomes]
rs4243177	0.81[EUR][1000 genomes]
rs4575545	0.83[EUR][1000 genomes]
rs4888043	0.81[EUR][1000 genomes]
rs4889009	0.81[EUR][1000 genomes]
rs4889012	0.81[EUR][1000 genomes]
rs4889014	0.82[EUR][1000 genomes]
rs4889015	0.82[EUR][1000 genomes]
rs56738967	0.90[EUR][1000 genomes]
rs56892402	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57652769	0.88[EUR][1000 genomes]
rs58722186	0.88[EUR][1000 genomes]
rs59617251	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6564688	0.82[EUR][1000 genomes]
rs7187128	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7188445	0.96[EUR][1000 genomes]
rs7190187	0.96[EUR][1000 genomes]
rs7195321	0.96[EUR][1000 genomes]
rs7200841	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7202240	0.90[EUR][1000 genomes]
rs7202770	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7203756	0.89[EUR][1000 genomes]
rs73575076	0.89[EUR][1000 genomes]
rs73575079	0.90[EUR][1000 genomes]
rs73575083	0.88[EUR][1000 genomes]
rs73575085	0.89[EUR][1000 genomes]
rs73575086	0.89[EUR][1000 genomes]
rs73575095	0.89[EUR][1000 genomes]
rs74037508	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs74037509	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7500666	0.81[EUR][1000 genomes]
rs8047723	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8048539	0.81[EUR][1000 genomes]
rs8048928	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8053589	0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv833295	chr16:79568878-79726768	Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv906992	chr16:79649394-79769790	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv530714	chr16:79661581-79925435	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv833296	chr16:79692236-79889727	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11646791	RP11-345M22.2	cis	Adipose Subcutaneous	GTEx
rs11646791	RP11-345M22.2	cis	Thyroid	GTEx

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:79698600-79703800	Weak transcription	Esophagus	oesophagus
2	chr16:79698600-79703800	Weak transcription	NHEK	skin
3	chr16:79698600-79707000	Weak transcription	Fetal Lung	lung
4	chr16:79698600-79707600	Weak transcription	Ovary	ovary
5	chr16:79698800-79701600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr16:79701200-79701800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr16:79701200-79702200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr16:79701200-79703000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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