Variant report

Variant	rs72878115
Chromosome Location	chr2:50331354-50331355
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:57913850..57916261-chr2:50331209..50333765,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000062716	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10490241	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10865243	0.86[EUR][1000 genomes]
rs11125288	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11883844	0.88[EUR][1000 genomes]
rs11887484	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs11898302	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11901625	0.86[EUR][1000 genomes]
rs12151727	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12465888	0.88[EUR][1000 genomes]
rs12469244	0.87[AFR][1000 genomes]
rs12473119	0.86[EUR][1000 genomes]
rs12474335	0.93[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12477934	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12479057	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12613778	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1377233	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1452766	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1452767	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1452768	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1452778	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1452779	0.88[EUR][1000 genomes]
rs1452780	0.88[EUR][1000 genomes]
rs1452781	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1452783	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1563024	0.86[EUR][1000 genomes]
rs1563026	0.88[EUR][1000 genomes]
rs1563027	0.88[EUR][1000 genomes]
rs17039801	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs17039807	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs17039863	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs17039935	0.87[EUR][1000 genomes]
rs1880075	0.84[EUR][1000 genomes]
rs1961358	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2011317	0.95[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2045003	0.87[EUR][1000 genomes]
rs4641977	0.88[EUR][1000 genomes]
rs4971554	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4971556	0.89[EUR][1000 genomes]
rs4971648	0.82[AFR][1000 genomes]
rs57366806	0.89[EUR][1000 genomes]
rs6716404	0.86[EUR][1000 genomes]
rs6731360	0.86[EUR][1000 genomes]
rs72874683	0.90[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs72878113	1.00[ASN][1000 genomes]
rs72878120	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72878122	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72878124	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72878159	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7590544	0.86[EUR][1000 genomes]
rs896685	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs921572	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs921573	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs930752	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs962333	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3388948	chr2:50092667-50602681	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv3399511	chr2:50092687-50602651	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv934303	chr2:50145598-50412189	Bivalent Enhancer Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv932915	chr2:50306630-50628415	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv2755683	chr2:50307245-50345280	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv2756107	chr2:50307245-50440043	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv948833	chr2:50307245-50459077	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv2756536	chr2:50313811-50375695	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv1002344	chr2:50326207-50518933	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv535692	chr2:50326207-50518933	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:50330400-50345600	Weak transcription	Fetal Brain Male	brain

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