Variant report

Variant	rs1663258
Chromosome Location	chr15:58533457-58533458
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	chr15:58532977..58534647-chr15:58537618..58539356,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128918	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11632498	0.95[ASN][1000 genomes]
rs11637181	0.95[ASN][1000 genomes]
rs11637278	0.95[ASN][1000 genomes]
rs12908890	0.94[ASN][1000 genomes]
rs16939955	0.88[ASN][1000 genomes]
rs16939960	0.95[ASN][1000 genomes]
rs16939962	0.95[ASN][1000 genomes]
rs1711063	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2414554	0.95[ASN][1000 genomes]
rs28510553	0.88[ASN][1000 genomes]
rs28578652	0.88[ASN][1000 genomes]
rs28663995	0.89[ASN][1000 genomes]
rs4402495	0.92[ASN][1000 genomes]
rs67026867	0.95[ASN][1000 genomes]
rs67047612	0.83[ASN][1000 genomes]
rs67215667	0.95[ASN][1000 genomes]
rs67690745	0.95[ASN][1000 genomes]
rs7164935	0.86[ASN][1000 genomes]
rs7172755	0.88[ASN][1000 genomes]
rs7174254	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7181221	0.88[ASN][1000 genomes]
rs755079	0.93[ASN][1000 genomes]
rs8025888	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv833024	chr15:58447459-58621963	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1050473	chr15:58479888-58562270	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv904264	chr15:58505122-58588510	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv904265	chr15:58517528-58588510	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
7	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
8	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58521400-58534200	Weak transcription	Liver	Liver
2	chr15:58523200-58537800	Weak transcription	Left Ventricle	heart
3	chr15:58524800-58547400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:58525000-58535200	Weak transcription	Right Atrium	heart
5	chr15:58527200-58533800	Weak transcription	Placenta	Placenta
6	chr15:58527600-58534000	Weak transcription	Hela-S3	cervix
7	chr15:58529600-58535400	Weak transcription	Primary T cells from cord blood	blood
8	chr15:58532800-58534600	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr15:58532800-58537800	Weak transcription	Psoas Muscle	Psoas
10	chr15:58532800-58540600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:58533000-58534200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr15:58533200-58533600	Weak transcription	Skeletal Muscle Female	skeletal muscle

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