Variant report

Variant	rs7739545
Chromosome Location	chr6:140069836-140069837
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:140069467..140071933-chr6:140072771..140075457,2	MCF-7	breast:
2	chr6:139695575..139697248-chr6:140068689..140071855,3	MCF-7	breast:
3	chr6:140068204..140070136-chr6:140072502..140075206,2	K562	blood:
4	chr6:140062822..140064897-chr6:140067790..140070616,2	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10782270	0.85[JPT][hapmap]
rs1936212	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1936213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1936215	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4301318	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4421208	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570371	0.92[CEU][hapmap];0.82[JPT][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6912263	0.92[CEU][hapmap];0.82[JPT][hapmap];0.88[EUR][1000 genomes]
rs6918560	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7742530	0.85[EUR][1000 genomes]
rs7761087	0.87[EUR][1000 genomes]
rs7761526	0.88[EUR][1000 genomes]
rs7762375	0.85[JPT][hapmap]
rs9321751	0.89[CEU][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes]
rs9376449	0.85[EUR][1000 genomes]
rs9376459	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9389712	0.81[CEU][hapmap];0.85[JPT][hapmap]
rs9389713	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9403105	0.82[JPT][hapmap]
rs9403108	0.88[AMR][1000 genomes];0.90[EUR][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	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
2	nsv464065	chr6:140027836-140085873	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv604766	chr6:140027836-140085873	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140054800-140072000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:140064400-140070000	Enhancers	Fetal Intestine Large	intestine
3	chr6:140065400-140071800	Weak transcription	HepG2	liver
4	chr6:140066000-140073400	Weak transcription	HSMM	muscle
5	chr6:140066200-140072800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:140066400-140072200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:140066400-140074800	Weak transcription	A549	lung
8	chr6:140066600-140071800	Weak transcription	NHDF-Ad	bronchial
9	chr6:140066800-140073400	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr6:140067800-140070400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr6:140067800-140070600	Enhancers	Fetal Intestine Small	intestine
12	chr6:140068200-140070200	Enhancers	Ovary	ovary
13	chr6:140068200-140070800	Enhancers	Placenta Amnion	Placenta Amnion
14	chr6:140068400-140070200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:140068400-140070200	Enhancers	Placenta	Placenta
16	chr6:140068400-140070200	Enhancers	Right Atrium	heart
17	chr6:140068800-140070400	Enhancers	Adipose Nuclei	Adipose
18	chr6:140069000-140070200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:140069000-140070200	Enhancers	Fetal Lung	lung
20	chr6:140069000-140071000	Enhancers	Fetal Heart	heart
21	chr6:140069200-140070000	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr6:140069200-140070000	Enhancers	NHLF	lung
23	chr6:140069200-140070200	Enhancers	HSMMtube	muscle
24	chr6:140069200-140070200	Enhancers	Osteobl	bone
25	chr6:140069200-140070400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr6:140069200-140070400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:140069200-140075800	Weak transcription	Pancreas	Pancrea
28	chr6:140069400-140070000	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr6:140069400-140070200	Enhancers	Hela-S3	cervix
30	chr6:140069400-140070600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:140069400-140070600	Enhancers	K562	blood
32	chr6:140069600-140070000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:140069600-140070000	Enhancers	NH-A	brain
34	chr6:140069600-140070200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:140069600-140070400	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr6:140069600-140070600	Enhancers	Duodenum Mucosa	Duodenum
37	chr6:140069800-140070200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr6:140069800-140070200	Enhancers	Liver	Liver
39	chr6:140069800-140070200	Enhancers	Fetal Kidney	kidney
40	chr6:140069800-140070200	Enhancers	NHEK	skin
41	chr6:140069800-140070600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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