Variant report

Variant	rs11716398
Chromosome Location	chr3:50699715-50699716
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:88877624..88879481-chr3:50698414..50700292,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198931	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1013233	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11712367	0.89[ASN][1000 genomes]
rs129310	0.85[AMR][1000 genomes]
rs1385025	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1563684	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs175634	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1824281	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1966921	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1971976	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs201193	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2086827	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2232248	0.80[AMR][1000 genomes]
rs2269505	0.85[AMR][1000 genomes]
rs2355323	0.87[AMR][1000 genomes]
rs34848480	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs375544	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3792325	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3792328	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3804627	0.82[AMR][1000 genomes]
rs3804632	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3943212	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs396302	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs399971	0.85[AMR][1000 genomes]
rs414171	0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs417592	0.84[AMR][1000 genomes]
rs441516	0.87[AMR][1000 genomes]
rs443030	0.85[AMR][1000 genomes]
rs443436	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs448028	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs453570	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs616589	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6446212	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6446213	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6776224	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6778680	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6779819	0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6796769	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs695170	0.87[AMR][1000 genomes]
rs728901	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs751851	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7615703	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7621650	0.81[ASN][1000 genomes]
rs7635666	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7645212	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7646236	0.87[AMR][1000 genomes]
rs808149	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs809454	0.85[AMR][1000 genomes]
rs813243	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs900735	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9682401	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9820606	0.87[ASN][1000 genomes]
rs9824444	0.84[ASN][1000 genomes]
rs9824522	0.89[ASN][1000 genomes]
rs9825535	0.89[ASN][1000 genomes]
rs9826757	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9831288	0.85[ASN][1000 genomes]
rs9867489	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013225	chr3:50440826-50700448	Flanking Active TSS Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv536566	chr3:50440826-50700448	Genic enhancers Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:50670400-50699800	Weak transcription	Hela-S3	cervix
2	chr3:50685800-50703800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:50687000-50712000	Weak transcription	Right Atrium	heart
4	chr3:50687600-50702400	Weak transcription	Spleen	Spleen
5	chr3:50688200-50702600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:50688800-50702600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:50690200-50702200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr3:50690400-50700200	Weak transcription	Left Ventricle	heart
9	chr3:50692800-50700600	Weak transcription	NHDF-Ad	bronchial
10	chr3:50696200-50700400	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr3:50696200-50702400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:50696400-50702800	Weak transcription	HSMM	muscle
13	chr3:50696600-50700200	Weak transcription	NHEK	skin

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