Variant report

Variant	rs6083050
Chromosome Location	chr20:23206726-23206727
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:23028507..23030914-chr20:23206513..23209479,3	MCF-7	breast:
2	chr20:23206231..23209945-chr20:23213936..23217641,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178726	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1005856	0.96[ASN][1000 genomes]
rs11896	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1338943	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1538445	0.94[CHB][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs4813483	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6076035	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6076040	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6083031	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6083044	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6083047	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6106615	0.95[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6106616	0.91[ASN][1000 genomes]
rs6106617	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6106619	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6113992	0.94[ASN][1000 genomes]
rs6114001	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6114004	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6132573	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6132576	0.94[ASN][1000 genomes]
rs6132580	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62206883	0.91[ASN][1000 genomes]
rs750653	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs844935	0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.81[MEX][hapmap];0.91[ASN][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	nsv912817	chr20:23127661-23240969	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1066734	chr20:23170094-23277628	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23204600-23208200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr20:23205200-23206800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr20:23205400-23206800	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr20:23205400-23208000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr20:23205400-23209800	Enhancers	Placenta	Placenta
6	chr20:23205400-23211400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr20:23205600-23206800	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr20:23205600-23206800	Enhancers	Adipose Nuclei	Adipose
9	chr20:23205600-23206800	Enhancers	Fetal Intestine Large	intestine
10	chr20:23205600-23207000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr20:23205600-23207400	Enhancers	Hela-S3	cervix
12	chr20:23205600-23208600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr20:23205600-23212800	Enhancers	NHDF-Ad	bronchial
14	chr20:23205600-23213000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr20:23205800-23206800	Enhancers	HSMM	muscle
16	chr20:23205800-23206800	Enhancers	NHLF	lung
17	chr20:23205800-23208400	Enhancers	Stomach Mucosa	stomach
18	chr20:23205800-23210400	Enhancers	Muscle Satellite Cultured Cells	--
19	chr20:23206000-23206800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr20:23206200-23207400	Enhancers	Duodenum Mucosa	Duodenum
21	chr20:23206200-23213000	Enhancers	Osteobl	bone
22	chr20:23206400-23206800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr20:23206400-23207200	Enhancers	Left Ventricle	heart
24	chr20:23206400-23207200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
25	chr20:23206400-23207400	Weak transcription	Right Atrium	heart
26	chr20:23206400-23208600	Weak transcription	HSMMtube	muscle
27	chr20:23206600-23208000	Weak transcription	Lung	lung

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