Variant report

Variant	rs2815092
Chromosome Location	chr6:39143925-39143926
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	chr6:39141745..39144055-chr6:39195107..39197568,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164626	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1019772	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1155348	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1366322	0.88[CEU][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1366324	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1366325	0.81[CEU][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs1465570	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1544934	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1835004	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1864061	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1896681	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2162838	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs228819	0.81[JPT][hapmap];1.00[AFR][1000 genomes]
rs2561416	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs2815056	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2815074	0.85[JPT][hapmap];0.87[EUR][1000 genomes]
rs2815075	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2815079	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2815088	0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2815090	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9380834	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs962311	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028088	chr6:38821047-39163549	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv538205	chr6:38821047-39163549	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv1022974	chr6:39120271-39277553	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv524717	chr6:39139764-39149140	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39138800-39146400	Weak transcription	Stomach Mucosa	stomach
2	chr6:39139600-39157600	Weak transcription	Ovary	ovary
3	chr6:39140000-39145200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:39140000-39146000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:39140000-39148800	Weak transcription	Pancreas	Pancrea
6	chr6:39140200-39145200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr6:39140200-39147800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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