Variant report

Variant	rs34608296
Chromosome Location	chr12:45425659-45425660
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	chr12:45423833..45426482-chr12:45441036..45442735,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10506260	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11609078	0.85[EUR][1000 genomes]
rs11609889	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11612170	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11612586	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11613494	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11614600	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11615455	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12301265	0.84[EUR][1000 genomes]
rs12306208	0.80[EUR][1000 genomes]
rs12810186	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12811419	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12811488	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12816104	0.82[EUR][1000 genomes]
rs12816234	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12816596	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12818196	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12822209	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12829582	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12830481	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12831193	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1605295	0.85[EUR][1000 genomes]
rs17095316	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17598279	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28696281	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34073769	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34089464	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34568257	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34685472	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35018588	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35139683	0.84[EUR][1000 genomes]
rs35256979	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35374916	0.85[EUR][1000 genomes]
rs35514455	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35531664	0.84[EUR][1000 genomes]
rs35540499	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35555451	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35781370	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35799097	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35939831	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56739303	0.81[AMR][1000 genomes]
rs71459269	0.85[EUR][1000 genomes]
rs71459270	0.82[EUR][1000 genomes]
rs71459279	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71459290	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71459292	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7298235	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3351644	chr12:45345597-45529449	Bivalent Enhancer Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1045857	chr12:45351172-45468784	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv541485	chr12:45351172-45468784	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised 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	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45424400-45428800	Weak transcription	Brain Substantia Nigra	brain
2	chr12:45424600-45426600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr12:45425000-45428600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:45425600-45426600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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