Variant report

Variant	rs59021616
Chromosome Location	chr15:50381146-50381147
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:50365547..50368039-chr15:50379457..50381521,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10162988	1.00[AMR][1000 genomes]
rs28378462	1.00[AMR][1000 genomes]
rs28430678	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28435529	1.00[AMR][1000 genomes]
rs28452447	1.00[AMR][1000 genomes]
rs28483908	1.00[AMR][1000 genomes]
rs28488704	1.00[AMR][1000 genomes]
rs28503500	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28547013	1.00[AMR][1000 genomes]
rs28624511	1.00[AMR][1000 genomes]
rs28665904	1.00[AMR][1000 genomes]
rs28694140	1.00[AMR][1000 genomes]
rs28694493	1.00[AMR][1000 genomes]
rs28695746	1.00[AMR][1000 genomes]
rs28720873	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56654392	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57191911	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57210505	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60436593	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60959211	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61626064	1.00[AMR][1000 genomes]
rs7163385	1.00[AMR][1000 genomes]
rs73400825	1.00[AMR][1000 genomes]
rs73400834	1.00[AMR][1000 genomes]
rs73400842	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73400860	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73400867	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73400871	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73400878	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73400879	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73400880	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920507	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv569395	chr15:50345393-50437494	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50367400-50381600	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr15:50376800-50386200	Weak transcription	Primary hematopoietic stem cells	blood
3	chr15:50379800-50381200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr15:50380600-50381200	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr15:50380800-50383200	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr15:50381000-50381200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:50381000-50381400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr15:50381000-50387800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links