Variant report

Variant	rs6881461
Chromosome Location	chr5:15020458-15020459
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:15014377..15017867-chr5:15019671..15021896,3	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10043444	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10866509	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11741614	0.81[AMR][1000 genomes]
rs11750471	0.81[AMR][1000 genomes]
rs13357328	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16903773	0.82[EUR][1000 genomes]
rs16903776	0.81[AMR][1000 genomes]
rs2592000	0.92[ASN][1000 genomes]
rs2652757	0.81[EUR][1000 genomes]
rs2652758	0.80[EUR][1000 genomes]
rs30549	0.92[ASN][1000 genomes]
rs32446	0.88[MEX][hapmap]
rs32448	0.88[MEX][hapmap]
rs5010555	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs5010556	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59356093	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62356082	0.86[AMR][1000 genomes]
rs6554868	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6862081	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6867275	0.82[EUR][1000 genomes]
rs7341022	0.94[CEU][hapmap];0.95[GIH][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs7708423	0.94[CEU][hapmap];0.82[AMR][1000 genomes]
rs7708528	0.88[CEU][hapmap]
rs7715918	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7716510	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7727180	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7727670	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9686327	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9687138	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9687144	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9687159	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9687484	0.90[AMR][1000 genomes]
rs9688320	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9688328	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv530221	chr5:14859687-15364470	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv432717	chr5:14887400-15126500	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1017579	chr5:14888997-15194335	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv461982	chr5:14943456-15044842	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv597262	chr5:14943456-15044842	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv470991	chr5:14949696-15022112	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15009400-15020800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr5:15009800-15021000	Weak transcription	Aorta	Aorta
3	chr5:15015200-15021200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr5:15015600-15020800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr5:15015600-15021000	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr5:15015600-15021000	Weak transcription	NH-A	brain
7	chr5:15016400-15020800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr5:15016400-15021000	Weak transcription	HSMMtube	muscle
9	chr5:15016800-15021200	Weak transcription	Right Atrium	heart
10	chr5:15019000-15020800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr5:15019000-15021000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr5:15019000-15021800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr5:15019200-15021400	Weak transcription	A549	lung
14	chr5:15019600-15024400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr5:15020000-15020800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr5:15020200-15021400	Weak transcription	Stomach Mucosa	stomach
17	chr5:15020200-15021800	Enhancers	Fetal Heart	heart
18	chr5:15020400-15020800	Weak transcription	Osteobl	bone
19	chr5:15020400-15021200	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr5:15020400-15022200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr5:15020400-15024400	Enhancers	Placenta	Placenta

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