Variant report

Variant	rs72782778
Chromosome Location	chr16:12051637-12051638
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:12051503..12053393-chr16:12070726..12072871,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260488	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10451099	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10468251	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10852345	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10852346	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11075035	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11075036	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11075037	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11075038	0.83[EUR][1000 genomes]
rs11570137	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11570162	0.80[EUR][1000 genomes]
rs11570173	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11864397	0.97[ASN][1000 genomes]
rs12597378	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12926535	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12927256	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12928141	0.94[ASN][1000 genomes]
rs12929036	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12929544	0.94[ASN][1000 genomes]
rs12929852	0.94[ASN][1000 genomes]
rs12933691	0.94[ASN][1000 genomes]
rs12934607	1.00[ASN][1000 genomes]
rs2017662	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2071336	0.83[EUR][1000 genomes]
rs35965279	0.85[ASN][1000 genomes]
rs365423	0.90[ASN][1000 genomes]
rs366262	1.00[ASN][1000 genomes]
rs3743591	0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3851002	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3851003	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs387871	0.91[ASN][1000 genomes]
rs3916675	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs57171695	0.96[ASN][1000 genomes]
rs58398910	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs59320000	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6498255	0.94[ASN][1000 genomes]
rs6498256	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6498257	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7189024	0.94[ASN][1000 genomes]
rs7190636	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7191310	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7195514	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8046211	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8047277	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8047663	0.83[EUR][1000 genomes]
rs8051343	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8055129	0.95[ASN][1000 genomes]
rs8060611	0.96[ASN][1000 genomes]
rs8062121	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9922422	0.99[ASN][1000 genomes]
rs9922795	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042660	chr16:11846873-12110435	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv571458	chr16:11925008-12087282	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv905347	chr16:12010444-12243329	Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv1043096	chr16:12013915-12840769	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv482458	chr16:12014925-12145977	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	nsv1043959	chr16:12039346-12285269	Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv571459	chr16:12046899-12062396	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12040400-12065400	Weak transcription	Fetal Intestine Small	intestine
2	chr16:12042200-12064400	Weak transcription	Fetal Stomach	stomach
3	chr16:12044800-12052400	Weak transcription	GM12878-XiMat	blood
4	chr16:12044800-12056400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr16:12048600-12064800	Weak transcription	Thymus	Thymus
6	chr16:12049000-12053400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr16:12050200-12053400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr16:12050200-12054000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr16:12050400-12058200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr16:12050800-12051800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr16:12050800-12052800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr16:12050800-12052800	Weak transcription	NHEK	skin
13	chr16:12051400-12052000	Enhancers	NHDF-Ad	bronchial
14	chr16:12051400-12053000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr16:12051400-12053200	Enhancers	Fetal Thymus	thymus
16	chr16:12051600-12051800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr16:12051600-12052200	Enhancers	Osteobl	bone
18	chr16:12051600-12052400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr16:12051600-12052400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr16:12051600-12053200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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