Variant report

Variant	rs73539606
Chromosome Location	chr6:132165758-132165759
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:132144023..132146678-chr6:132164054..132166983,3	MCF-7	breast:
2	chr6:132133834..132135480-chr6:132163405..132166037,2	MCF-7	breast:
3	chr6:132127831..132129937-chr6:132164631..132166563,2	MCF-7	breast:
4	chr6:132128036..132129739-chr6:132163992..132166107,2	MCF-7	breast:
5	chr6:132163649..132166225-chr6:132168034..132170315,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197594	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12660595	1.00[AMR][1000 genomes]
rs12661063	1.00[AMR][1000 genomes]
rs12662953	1.00[AMR][1000 genomes]
rs12663389	1.00[AMR][1000 genomes]
rs12664747	1.00[AMR][1000 genomes]
rs12664750	1.00[AMR][1000 genomes]
rs12665617	1.00[AMR][1000 genomes]
rs3908474	1.00[AMR][1000 genomes]
rs4371863	1.00[AMR][1000 genomes]
rs59157727	0.98[AFR][1000 genomes]
rs61027777	1.00[AMR][1000 genomes]
rs73537697	1.00[AMR][1000 genomes]
rs73539605	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73539675	1.00[AMR][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	nsv515476	chr6:131615425-132228577	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv7968	chr6:131917172-132321099	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv886670	chr6:132071193-132193395	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
4	nsv886671	chr6:132071193-132203432	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132141000-132176000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:132141600-132172000	Weak transcription	HSMM	muscle
3	chr6:132145800-132171800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr6:132147600-132199200	Weak transcription	Fetal Stomach	stomach
5	chr6:132149800-132172200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:132151600-132182400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:132154200-132171800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:132158200-132171200	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr6:132159600-132176000	Weak transcription	NH-A	brain
10	chr6:132159600-132179800	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr6:132160000-132180600	Weak transcription	Placenta	Placenta
12	chr6:132162200-132171800	Weak transcription	Fetal Muscle Leg	muscle
13	chr6:132162200-132211000	Weak transcription	Fetal Kidney	kidney
14	chr6:132162400-132171600	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr6:132162600-132181000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:132163000-132181000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:132163000-132182600	Weak transcription	HSMMtube	muscle
18	chr6:132163000-132213600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:132163400-132179200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr6:132163600-132172200	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:132163600-132183400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr6:132164000-132171800	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr6:132164600-132166000	Enhancers	NHLF	lung
24	chr6:132164800-132166000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr6:132164800-132166200	Enhancers	NHDF-Ad	bronchial
26	chr6:132165000-132165800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:132165000-132166000	Enhancers	Pancreatic Islets	Pancreatic Islet
28	chr6:132165000-132166000	Enhancers	Stomach Mucosa	stomach
29	chr6:132165000-132166200	Flanking Active TSS	HepG2	liver
30	chr6:132165200-132166000	Enhancers	Fetal Intestine Small	intestine
31	chr6:132165200-132174600	Weak transcription	Pancreas	Pancrea
32	chr6:132165400-132165800	Weak transcription	Fetal Intestine Large	intestine
33	chr6:132165400-132168600	Active TSS	Liver	Liver
34	chr6:132165600-132166000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr6:132165600-132166000	Enhancers	Osteobl	bone

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