Variant report

Variant	rs6880552
Chromosome Location	chr5:112745597-112745598
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10041899	0.85[AMR][1000 genomes]
rs10042223	0.85[AMR][1000 genomes]
rs10053654	0.85[AMR][1000 genomes]
rs10061331	0.81[AMR][1000 genomes]
rs10062004	0.85[AMR][1000 genomes]
rs10074214	0.81[AMR][1000 genomes]
rs13188946	0.85[AMR][1000 genomes]
rs13359330	0.84[AMR][1000 genomes]
rs1366393	0.82[AMR][1000 genomes]
rs1464163	0.81[AMR][1000 genomes]
rs1517207	0.85[AMR][1000 genomes]
rs1850407	0.85[AMR][1000 genomes]
rs1850412	0.81[AMR][1000 genomes]
rs2222144	0.85[AMR][1000 genomes]
rs255861	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs255862	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs255865	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs255866	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs255872	0.80[AMR][1000 genomes]
rs255877	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs26959	0.85[AMR][1000 genomes]
rs26961	0.85[AMR][1000 genomes]
rs26964	0.85[AMR][1000 genomes]
rs26966	0.85[AMR][1000 genomes]
rs26967	0.82[AMR][1000 genomes]
rs26968	0.85[AMR][1000 genomes]
rs26969	0.85[AMR][1000 genomes]
rs27567	0.85[AMR][1000 genomes]
rs6594703	0.81[AMR][1000 genomes]
rs6594707	0.85[AMR][1000 genomes]
rs6594710	0.84[AMR][1000 genomes]
rs6594712	0.85[AMR][1000 genomes]
rs6860495	0.85[AMR][1000 genomes]
rs6867397	0.85[AMR][1000 genomes]
rs6868141	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6868148	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6871812	0.85[AMR][1000 genomes]
rs6876848	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6880749	0.81[AMR][1000 genomes]
rs6894687	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7700413	0.81[AMR][1000 genomes]
rs7708084	0.83[AMR][1000 genomes]
rs7714734	0.85[AMR][1000 genomes]
rs7717422	0.81[AMR][1000 genomes]
rs7718480	0.81[AMR][1000 genomes]
rs7725589	0.81[AMR][1000 genomes]
rs7731465	0.81[AMR][1000 genomes]
rs7731854	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7734061	0.85[AMR][1000 genomes]
rs7734304	0.85[AMR][1000 genomes]
rs9326884	0.85[AMR][1000 genomes]
rs9326886	0.85[AMR][1000 genomes]
rs9326887	0.85[AMR][1000 genomes]
rs9326888	0.85[AMR][1000 genomes]
rs9326889	0.85[AMR][1000 genomes]
rs9632462	0.85[AMR][1000 genomes]
rs9687632	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112724400-112751200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:112741400-112746400	Weak transcription	Pancreas	Pancrea

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