Variant report

Variant	rs56090613
Chromosome Location	chr5:112821283-112821284
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:112817510..112822037-chr5:112849495..112852801,4	MCF-7	breast:
2	chr5:112819169..112822042-chr5:112827227..112829109,2	MCF-7	breast:
3	chr5:112811062..112815504-chr5:112818708..112822151,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000047188	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10035293	0.91[ASN][1000 genomes]
rs10035297	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10038504	0.85[ASN][1000 genomes]
rs10042141	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10043783	0.89[ASN][1000 genomes]
rs10043834	0.91[ASN][1000 genomes]
rs10052747	0.93[ASN][1000 genomes]
rs10053052	0.85[ASN][1000 genomes]
rs10053157	0.85[ASN][1000 genomes]
rs10053622	0.89[ASN][1000 genomes]
rs10055327	0.85[ASN][1000 genomes]
rs10057000	0.89[ASN][1000 genomes]
rs10057264	0.85[ASN][1000 genomes]
rs10057372	0.85[ASN][1000 genomes]
rs10060179	0.80[ASN][1000 genomes]
rs10066163	0.85[ASN][1000 genomes]
rs10070825	0.84[ASN][1000 genomes]
rs10078576	0.91[ASN][1000 genomes]
rs10155616	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10477492	0.85[ASN][1000 genomes]
rs10477493	0.93[ASN][1000 genomes]
rs10477494	0.84[ASN][1000 genomes]
rs10478123	0.85[ASN][1000 genomes]
rs10478124	0.85[ASN][1000 genomes]
rs11950116	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11950577	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11952758	0.85[ASN][1000 genomes]
rs11953401	0.85[ASN][1000 genomes]
rs11960559	0.89[ASN][1000 genomes]
rs12332461	0.83[ASN][1000 genomes]
rs12652864	0.86[EUR][1000 genomes]
rs12656898	0.90[EUR][1000 genomes]
rs12659593	0.90[EUR][1000 genomes]
rs13354840	0.85[ASN][1000 genomes]
rs13355687	0.85[ASN][1000 genomes]
rs13356509	0.84[ASN][1000 genomes]
rs13358111	0.85[ASN][1000 genomes]
rs1582487	0.90[EUR][1000 genomes]
rs17135586	0.86[EUR][1000 genomes]
rs17135601	0.86[EUR][1000 genomes]
rs17135607	0.86[EUR][1000 genomes]
rs17135615	0.86[EUR][1000 genomes]
rs17135618	0.85[ASN][1000 genomes]
rs17135647	0.91[EUR][1000 genomes]
rs1816063	0.82[EUR][1000 genomes]
rs2222145	0.86[EUR][1000 genomes]
rs28566618	0.89[ASN][1000 genomes]
rs28714108	0.89[ASN][1000 genomes]
rs28793421	0.89[ASN][1000 genomes]
rs2900070	0.86[EUR][1000 genomes]
rs34936289	0.85[ASN][1000 genomes]
rs35724644	0.85[ASN][1000 genomes]
rs36009332	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36015377	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3842916	0.87[ASN][1000 genomes]
rs3843500	0.95[EUR][1000 genomes]
rs3843501	0.91[ASN][1000 genomes]
rs3857436	0.91[ASN][1000 genomes]
rs41459745	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4345310	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55912732	0.85[ASN][1000 genomes]
rs56081130	0.85[ASN][1000 genomes]
rs59211196	0.85[ASN][1000 genomes]
rs6594702	0.85[ASN][1000 genomes]
rs6866028	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6871995	0.85[ASN][1000 genomes]
rs6879177	0.84[ASN][1000 genomes]
rs6879370	0.85[ASN][1000 genomes]
rs73779003	0.85[ASN][1000 genomes]
rs73779004	0.85[ASN][1000 genomes]
rs73779005	0.85[ASN][1000 genomes]
rs73779006	0.85[ASN][1000 genomes]
rs73781720	0.89[AMR][1000 genomes]
rs7705430	0.85[ASN][1000 genomes]
rs7705568	0.85[ASN][1000 genomes]
rs7709433	0.81[ASN][1000 genomes]
rs7709550	0.89[ASN][1000 genomes]
rs7709818	0.89[ASN][1000 genomes]
rs7715071	0.85[ASN][1000 genomes]
rs7715884	0.85[ASN][1000 genomes]
rs7719254	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7722421	0.85[ASN][1000 genomes]
rs7726631	0.85[ASN][1000 genomes]
rs7731451	0.84[ASN][1000 genomes]
rs7735806	0.83[ASN][1000 genomes]
rs9654506	0.84[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:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112807800-112821600	Weak transcription	HMEC	breast
2	chr5:112810200-112823000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr5:112810400-112821600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr5:112813400-112822800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr5:112820600-112823000	Weak transcription	Right Ventricle	heart
6	chr5:112821000-112821600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr5:112821000-112821800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr5:112821000-112822200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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