Variant report

Variant	rs6868620
Chromosome Location	chr5:112808186-112808187
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	chr5:112806357..112808384-chr5:112822397..112825352,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171444	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10037836	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10037845	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10038017	0.86[ASN][1000 genomes]
rs10040533	1.00[ASN][1000 genomes]
rs10043512	1.00[ASN][1000 genomes]
rs10044201	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10056104	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10058535	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10070884	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10070990	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10074346	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10077020	1.00[CHB][hapmap]
rs10478121	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11954410	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11958613	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11958734	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12108831	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs13361059	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs13361060	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17135568	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17135570	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1882620	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2068922	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs28462299	1.00[ASN][1000 genomes]
rs57727389	1.00[ASN][1000 genomes]
rs61560548	1.00[ASN][1000 genomes]
rs6871995	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6874313	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73781511	0.86[ASN][1000 genomes]
rs73781512	1.00[ASN][1000 genomes]
rs73781513	1.00[ASN][1000 genomes]
rs73781514	1.00[ASN][1000 genomes]
rs7700940	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7718459	1.00[ASN][1000 genomes]
rs7719166	1.00[ASN][1000 genomes]
rs7720189	1.00[ASN][1000 genomes]
rs7736171	1.00[ASN][1000 genomes]
rs9285877	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9326881	1.00[ASN][1000 genomes]
rs9326882	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9326883	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9326896	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr5:112786200-112810000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:112794800-112810000	Weak transcription	NHEK	skin
3	chr5:112807200-112808200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
4	chr5:112807200-112808200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr5:112807600-112808200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:112807800-112821600	Weak transcription	HMEC	breast
7	chr5:112808000-112808800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr5:112808000-112810000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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