Variant report

Variant	rs12650934
Chromosome Location	chr4:91063703-91063704
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:91062775..91065678-chr4:91069290..91071948,2	MCF-7	breast:
2	chr4:91047815..91052213-chr4:91059218..91065616,9	MCF-7	breast:
3	chr4:91053948..91055557-chr4:91062893..91064405,2	MCF-7	breast:
4	chr4:91051066..91053200-chr4:91063053..91065601,2	MCF-7	breast:
5	chr4:91058460..91060722-chr4:91062394..91065261,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000184305	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11934796	0.84[EUR][1000 genomes]
rs11935738	0.84[EUR][1000 genomes]
rs11937976	0.84[EUR][1000 genomes]
rs11944177	0.84[EUR][1000 genomes]
rs11947949	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs11947970	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs12645059	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12645259	0.84[EUR][1000 genomes]
rs17016538	0.81[EUR][1000 genomes]
rs17016540	0.94[CEU][hapmap];0.87[EUR][1000 genomes]
rs17016560	0.87[EUR][1000 genomes]
rs17016562	0.85[EUR][1000 genomes]
rs17016565	0.84[EUR][1000 genomes]
rs1835518	0.94[CEU][hapmap];0.82[EUR][1000 genomes]
rs1835519	0.84[EUR][1000 genomes]
rs1835523	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs1835524	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs1946567	0.94[CEU][hapmap];0.88[EUR][1000 genomes]
rs1963874	0.94[CEU][hapmap];0.87[EUR][1000 genomes]
rs2726	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs35545901	0.89[EUR][1000 genomes]
rs56054231	0.84[EUR][1000 genomes]
rs57291587	0.88[EUR][1000 genomes]
rs57352504	0.81[EUR][1000 genomes]
rs58507725	0.81[EUR][1000 genomes]
rs60047025	0.84[EUR][1000 genomes]
rs60520837	0.87[EUR][1000 genomes]
rs61394011	0.84[EUR][1000 genomes]
rs6532214	0.84[EUR][1000 genomes]
rs6834950	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs6837278	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs6849100	0.81[EUR][1000 genomes]
rs6855891	0.81[EUR][1000 genomes]
rs72874395	0.88[EUR][1000 genomes]
rs72874402	0.82[EUR][1000 genomes]
rs72876108	0.84[EUR][1000 genomes]
rs72876110	0.83[EUR][1000 genomes]
rs7680617	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012406	chr4:90167781-91166787	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv949454	chr4:90272120-91156917	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv470053	chr4:90879613-91439573	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv879537	chr4:90883047-91165346	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
5	nsv931074	chr4:90970476-91753697	Enhancers Strong transcription Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv830006	chr4:90971656-91186340	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
7	nsv879538	chr4:90993172-91080308	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
8	nsv879539	chr4:91015463-91065352	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
9	nsv1007826	chr4:91049593-91438961	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv537177	chr4:91049593-91438961	Bivalent/Poised TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv999065	chr4:91049593-91520073	Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:91063000-91063800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr4:91063000-91064400	Enhancers	Pancreatic Islets	Pancreatic Islet
3	chr4:91063200-91064000	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr4:91063400-91063800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr4:91063600-91063800	Enhancers	Fetal Intestine Small	intestine
6	chr4:91063600-91064600	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr4:91063600-91066000	Weak transcription	Brain Germinal Matrix	brain

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