Variant report

Variant	rs12660850
Chromosome Location	chr6:139903229-139903230
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:139691841..139699576-chr6:139900868..139917289,34	MCF-7	breast:
2	chr6:139902793..139905980-chr6:139905991..139910426,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11155078	0.83[CHB][hapmap]
rs11751645	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755906	0.83[CHB][hapmap]
rs12524701	0.83[CHB][hapmap]
rs12527215	0.82[CHB][hapmap]
rs12529380	0.83[CHB][hapmap]
rs12664553	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069017	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17069030	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4896477	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs61117481	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73775562	1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9321729	0.89[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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:139899000-139907000	Weak transcription	K562	blood
2	chr6:139899600-139908800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:139900000-139904000	Weak transcription	NHLF	lung
4	chr6:139900000-139904400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:139900000-139907400	Weak transcription	Pancreas	Pancrea
6	chr6:139900000-139908800	Weak transcription	Fetal Lung	lung
7	chr6:139900200-139903600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:139900200-139903800	Weak transcription	NH-A	brain
9	chr6:139900200-139904000	Weak transcription	NHEK	skin
10	chr6:139900200-139904200	Weak transcription	HMEC	breast
11	chr6:139900200-139904600	Weak transcription	Fetal Heart	heart
12	chr6:139900200-139909000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:139900400-139903800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:139900400-139904000	Weak transcription	Osteobl	bone
15	chr6:139900400-139904200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:139900400-139904200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:139900400-139904200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:139900400-139904200	Weak transcription	HSMM	muscle
19	chr6:139900400-139904200	Weak transcription	NHDF-Ad	bronchial
20	chr6:139900400-139908800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:139900400-139908800	Weak transcription	Fetal Intestine Large	intestine
22	chr6:139900800-139908800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr6:139900800-139919200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:139901000-139904000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:139901000-139904000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:139902200-139903400	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr6:139902400-139906800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:139902400-139909200	Weak transcription	Right Ventricle	heart
29	chr6:139902600-139906800	Weak transcription	Fetal Kidney	kidney
30	chr6:139902600-139907200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr6:139902600-139908000	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr6:139902800-139904000	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr6:139903200-139906200	Enhancers	Placenta	Placenta

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