Variant report

Variant	rs28486084
Chromosome Location	chr15:56089859-56089860
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	chr15:56066228..56069099-chr15:56088720..56091536,3	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10518822	0.80[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11071219	0.85[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11853766	0.83[ASN][1000 genomes]
rs12439615	0.83[ASN][1000 genomes]
rs12594225	0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs17238405	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2008672	0.91[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2014213	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2414442	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28807987	0.83[ASN][1000 genomes]
rs4395015	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs4415961	0.83[ASN][1000 genomes]
rs56179937	0.83[ASN][1000 genomes]
rs57692605	0.83[ASN][1000 genomes]
rs57725406	0.84[ASN][1000 genomes]
rs59983763	0.83[ASN][1000 genomes]
rs60503643	0.83[ASN][1000 genomes]
rs62046598	0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7182436	0.89[ASN][1000 genomes]
rs8030099	0.83[ASN][1000 genomes]
rs8030626	0.85[ASN][1000 genomes]
rs8034279	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs8034296	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs8038986	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs933996	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv833017	chr15:55965957-56157912	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	esv3366380	chr15:56003224-56141650	Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
6	nsv1052495	chr15:56013617-56102164	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr15:56085000-56091400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:56085200-56091200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr15:56085200-56091800	Weak transcription	HSMM	muscle
4	chr15:56086800-56091600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:56087600-56090400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:56089000-56090800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:56089000-56093600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr15:56089400-56091400	Weak transcription	Hela-S3	cervix

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