Variant report

Variant	rs2880793
Chromosome Location	chr3:88089794-88089795
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	chr3:88089281..88093496-chr3:88099183..88102618,6	MCF-7	breast:
2	chr3:88087550..88089989-chr3:88107384..88108978,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163320	Chromatin interaction
ENSG00000229729	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12632860	1.00[ASN][1000 genomes]
rs1431154	1.00[ASN][1000 genomes]
rs1431155	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1431156	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1469570	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1594453	1.00[ASN][1000 genomes]
rs1594455	1.00[ASN][1000 genomes]
rs1604700	1.00[ASN][1000 genomes]
rs1835544	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1897238	1.00[ASN][1000 genomes]
rs2033390	1.00[ASN][1000 genomes]
rs2344183	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2344184	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4431134	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4515075	1.00[ASN][1000 genomes]
rs4616669	1.00[ASN][1000 genomes]
rs4858927	1.00[ASN][1000 genomes]
rs4858970	1.00[ASN][1000 genomes]
rs6301	0.83[EUR][1000 genomes]
rs6767497	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7650749	1.00[ASN][1000 genomes]
rs919582	0.93[AFR][1000 genomes]
rs930154	1.00[ASN][1000 genomes]
rs930155	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9310062	1.00[ASN][1000 genomes]
rs9310063	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9310064	1.00[ASN][1000 genomes]
rs9812903	1.00[ASN][1000 genomes]
rs9833231	1.00[ASN][1000 genomes]
rs9850550	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9854250	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9867614	1.00[ASN][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	nsv877146	chr3:87983962-88159835	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases
2	nsv916330	chr3:88083580-88884125	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv525814	chr3:88085633-88091543	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:88081800-88091200	Weak transcription	Right Atrium	heart
2	chr3:88087600-88090600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:88088000-88092800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr3:88088400-88104200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:88089000-88102800	Weak transcription	NHDF-Ad	bronchial
6	chr3:88089200-88093000	Weak transcription	Primary hematopoietic stem cells	blood

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