Variant report

Variant	rs2682019
Chromosome Location	chr15:56619791-56619792
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:56613331..56614994-chr15:56619251..56621411,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11630363	0.82[EUR][1000 genomes]
rs11633374	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12900678	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12905782	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12908734	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1402177	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1549452	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1554410	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17819438	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1829542	0.82[AFR][1000 genomes]
rs2114183	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2249090	0.84[AMR][1000 genomes]
rs2303441	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2460646	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2465973	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2682012	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2682021	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682023	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2682051	0.81[AMR][1000 genomes]
rs2713926	0.82[AFR][1000 genomes]
rs2713931	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2713936	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2713938	0.82[AFR][1000 genomes]
rs2718901	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2718908	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2725854	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2725862	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2947020	0.84[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2947021	0.82[AMR][1000 genomes]
rs34755898	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35497167	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35863560	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3784552	0.84[EUR][1000 genomes]
rs3817406	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3985758	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4774859	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62022122	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62022127	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62022133	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6493856	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6493858	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7174892	0.81[ASN][1000 genomes]
rs7496402	0.81[AMR][1000 genomes];0.85[EUR][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	nsv833019	chr15:56486029-56649933	Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56613400-56623400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:56614600-56619800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr15:56619400-56621400	Enhancers	Placenta	Placenta
4	chr15:56619600-56619800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr15:56619600-56620000	Flanking Active TSS	HMEC	breast
6	chr15:56619600-56620400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr15:56619600-56620400	Flanking Active TSS	NHEK	skin
8	chr15:56619600-56620800	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr15:56619600-56621200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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