Variant report

Variant	rs6480860
Chromosome Location	chr10:54213421-54213422
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:54212041..54213669-chr10:54235510..54237666,2	MCF-7	breast:
2	chr10:54065637..54068534-chr10:54212590..54214631,2	MCF-7	breast:
3	chr10:54065577..54083492-chr10:54193846..54218961,120	MCF-7	breast:
4	chr10:54209005..54216553-chr10:54229340..54240512,26	MCF-7	breast:
5	chr10:54071324..54082180-chr10:54192987..54217560,81	MCF-7	breast:
6	chr10:54211976..54214019-chr10:54283637..54285947,2	MCF-7	breast:
7	chr10:54210336..54216145-chr10:54229738..54234633,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231131	Chromatin interaction
ENSG00000107984	Chromatin interaction
ENSG00000236671	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs11001564	1.00[CEU][hapmap]
rs7101155	0.87[YRI][hapmap]
rs7902256	1.00[YRI][hapmap];1.00[AFR][1000 genomes]

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	nsv532194	chr10:53746620-54735550	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv895399	chr10:53900872-54219820	Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:54209200-54214200	Enhancers	Hela-S3	cervix
2	chr10:54211600-54214800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr10:54211800-54213600	Enhancers	HepG2	liver
4	chr10:54212000-54215200	Flanking Active TSS	HMEC	breast
5	chr10:54212400-54214800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr10:54212400-54215000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr10:54212600-54214800	Weak transcription	NHDF-Ad	bronchial
8	chr10:54212600-54218400	Weak transcription	Osteobl	bone
9	chr10:54212800-54213800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr10:54212800-54214800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr10:54212800-54214800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr10:54212800-54215400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr10:54213000-54213600	Enhancers	NHEK	skin
14	chr10:54213000-54213800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr10:54213000-54214200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr10:54213000-54214800	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr10:54213000-54214800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr10:54213400-54213800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr10:54213400-54214000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr10:54213400-54214400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr10:54213400-54215600	Enhancers	Muscle Satellite Cultured Cells	--
22	chr10:54213400-54215600	Flanking Active TSS	A549	lung

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