Variant report

Variant	rs6864156
Chromosome Location	chr5:58367957-58367958
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	chr5:58363195..58365401-chr5:58365586..58367971,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10066573	1.00[CEU][hapmap];0.82[GIH][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs10068543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10514870	0.89[CHB][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap];0.87[MEX][hapmap]
rs1077183	0.87[MEX][hapmap]
rs12654485	0.87[CEU][hapmap]
rs12657171	0.86[MEX][hapmap]
rs13175380	0.87[EUR][1000 genomes]
rs13183985	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17720639	0.88[JPT][hapmap]
rs17776879	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2021775	1.00[CEU][hapmap]
rs33927508	0.87[CEU][hapmap]
rs35859105	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6450501	0.97[EUR][1000 genomes]
rs6450502	1.00[CEU][hapmap];0.82[GIH][hapmap];0.92[MEX][hapmap];0.97[EUR][1000 genomes]
rs6889456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71626132	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71626133	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7707541	0.88[JPT][hapmap]
rs7737269	0.83[AFR][1000 genomes]
rs950447	0.82[ASW][hapmap];0.88[YRI][hapmap]
rs986067	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830312	chr5:58191579-58382226	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv830313	chr5:58273724-58421098	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1032308	chr5:58312468-58371239	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58336200-58375600	Weak transcription	Left Ventricle	heart
2	chr5:58360600-58373800	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr5:58362400-58368200	Weak transcription	Psoas Muscle	Psoas
4	chr5:58365400-58375200	Weak transcription	Hela-S3	cervix
5	chr5:58365600-58369000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr5:58366000-58368400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr5:58366000-58375600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr5:58366000-58375800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr5:58366600-58371000	Genic enhancers	A549	lung
10	chr5:58367200-58369600	Enhancers	HepG2	liver

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