Variant report

Variant	rs6097716
Chromosome Location	chr20:52618798-52618799
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	chr12:6492044..6494897-chr20:52616596..52619524,2	MCF-7	breast:
2	chr17:57918144..57920726-chr20:52615872..52618814,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000199004	Chromatin interaction
ENSG00000111321	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1016279	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10485441	0.93[CEU][hapmap]
rs1125895	0.93[CEU][hapmap];0.92[EUR][1000 genomes]
rs12480106	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs1477639	0.92[EUR][1000 genomes]
rs2024064	0.87[CEU][hapmap];0.93[EUR][1000 genomes]
rs2024066	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2108456	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs2276494	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2276496	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2276497	0.93[EUR][1000 genomes]
rs2276502	0.93[EUR][1000 genomes]
rs2276510	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2302039	0.92[EUR][1000 genomes]
rs35575210	0.84[EUR][1000 genomes]
rs371096	0.86[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3815270	0.93[CEU][hapmap];0.92[EUR][1000 genomes]
rs382133	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs402992	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4809946	0.84[JPT][hapmap]
rs4809947	0.85[JPT][hapmap]
rs55672258	0.90[EUR][1000 genomes]
rs55776232	0.93[EUR][1000 genomes]
rs6013869	0.80[YRI][hapmap]
rs6022877	0.85[ASN][1000 genomes]
rs6091793	0.93[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6091794	0.93[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6097713	0.93[YRI][hapmap]
rs714514	0.93[CEU][hapmap];0.92[EUR][1000 genomes]
rs7272317	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8124068	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs872923	0.94[JPT][hapmap]
rs872924	0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34060	chr20:52251863-52702186	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	296 gene(s)	inside rSNPs	diseases
2	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52566400-52644800	Weak transcription	Gastric	stomach
2	chr20:52601800-52630800	Weak transcription	Stomach Mucosa	stomach
3	chr20:52614400-52623400	Weak transcription	Brain Angular Gyrus	brain
4	chr20:52618200-52618800	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
5	chr20:52618600-52619000	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum

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