Variant report

Variant	rs11176562
Chromosome Location	chr12:67460801-67460802
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:67460777..67464522-chr12:67661841..67665703,9	MCF-7	breast:
2	chr12:67459525..67462456-chr12:67462804..67465110,3	MCF-7	breast:
3	chr12:67441847..67445341-chr12:67460170..67462670,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111530	Chromatin interaction
ENSG00000256248	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10459266	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10784605	0.93[ASN][1000 genomes]
rs10784606	0.93[ASN][1000 genomes]
rs10784607	0.93[ASN][1000 genomes]
rs10784608	0.93[ASN][1000 genomes]
rs10784609	0.93[ASN][1000 genomes]
rs10878553	0.89[ASN][1000 genomes]
rs10878559	0.93[ASN][1000 genomes]
rs10878560	0.93[ASN][1000 genomes]
rs10878561	0.93[ASN][1000 genomes]
rs10878566	0.93[ASN][1000 genomes]
rs11176552	0.89[ASN][1000 genomes]
rs11176555	0.92[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11176556	0.92[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs11176557	0.93[ASN][1000 genomes]
rs11176567	0.96[ASN][1000 genomes]
rs11176577	0.85[ASN][1000 genomes]
rs11176580	0.93[ASN][1000 genomes]
rs11176582	0.91[ASN][1000 genomes]
rs11176586	0.93[ASN][1000 genomes]
rs11829047	0.93[ASN][1000 genomes]
rs12227624	0.93[ASN][1000 genomes]
rs12227692	0.96[ASN][1000 genomes]
rs12228046	0.89[ASN][1000 genomes]
rs12228922	0.95[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12228998	0.95[ASN][1000 genomes]
rs12230670	0.93[ASN][1000 genomes]
rs12231102	0.96[ASN][1000 genomes]
rs12833688	0.93[ASN][1000 genomes]
rs1465026	0.93[ASN][1000 genomes]
rs1526835	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1526839	0.93[ASN][1000 genomes]
rs1589971	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2870926	0.89[ASN][1000 genomes]
rs2904534	0.89[ASN][1000 genomes]
rs4244070	0.89[ASN][1000 genomes]
rs4913529	0.89[ASN][1000 genomes]
rs6581735	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581740	0.95[ASN][1000 genomes]
rs7136952	0.89[ASN][1000 genomes]
rs7138249	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7298268	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7311137	0.95[ASN][1000 genomes]
rs7953961	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7959866	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7961562	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7961790	0.95[ASN][1000 genomes]
rs7961954	0.95[ASN][1000 genomes]
rs7962241	0.95[ASN][1000 genomes]
rs7974866	0.93[ASN][1000 genomes]
rs7980101	0.95[ASN][1000 genomes]
rs941096	0.95[ASN][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	nsv541524	chr12:67311057-67700349	Strong transcription Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv469462	chr12:67361657-67475906	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv559211	chr12:67361657-67475906	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv559212	chr12:67373549-67850925	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:67440200-67461200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:67451200-67461000	Weak transcription	HMEC	breast
3	chr12:67459600-67461000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr12:67460000-67461000	Weak transcription	Fetal Brain Female	brain
5	chr12:67460000-67461400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr12:67460200-67461200	Weak transcription	Brain Germinal Matrix	brain
7	chr12:67460800-67461000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr12:67460800-67461200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr12:67460800-67461200	Bivalent Enhancer	Primary T cells from cord blood	blood
10	chr12:67460800-67461600	Active TSS	Placenta	Placenta

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