Variant report

Variant	rs59729561
Chromosome Location	chr6:56225115-56225116
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56225017..56229279-chr6:56229711..56233671,3	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11962322	0.84[EUR][1000 genomes]
rs11967161	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11969365	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12110836	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16887806	0.84[EUR][1000 genomes]
rs60152592	0.84[EUR][1000 genomes]
rs61123577	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6459156	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs648096	1.00[ASN][1000 genomes]
rs648630	1.00[ASN][1000 genomes]
rs650938	1.00[ASN][1000 genomes]
rs676454	1.00[ASN][1000 genomes]
rs73450950	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73745620	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7769615	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775609	1.00[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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56218400-56229200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:56221400-56231000	Weak transcription	Right Ventricle	heart
3	chr6:56221600-56233200	Weak transcription	NHLF	lung
4	chr6:56221800-56229800	Weak transcription	Fetal Stomach	stomach
5	chr6:56222400-56231000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:56222600-56229200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:56222600-56230800	Weak transcription	Fetal Heart	heart
8	chr6:56222600-56231000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:56222800-56229200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:56223000-56229200	Weak transcription	NHDF-Ad	bronchial
11	chr6:56223200-56228600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr6:56223200-56228800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:56223200-56228800	Weak transcription	HSMMtube	muscle
14	chr6:56223200-56229000	Weak transcription	NH-A	brain
15	chr6:56223400-56228800	Weak transcription	Osteobl	bone
16	chr6:56223400-56229000	Weak transcription	HSMM	muscle
17	chr6:56223400-56229200	Weak transcription	Colon Smooth Muscle	Colon
18	chr6:56223400-56231000	Weak transcription	Fetal Lung	lung
19	chr6:56224200-56225400	Enhancers	HUVEC	blood vessel
20	chr6:56224200-56228800	Weak transcription	HMEC	breast
21	chr6:56224200-56229200	Weak transcription	NHEK	skin
22	chr6:56224400-56225200	Enhancers	Brain Hippocampus Middle	brain
23	chr6:56224400-56225200	Enhancers	Rectal Smooth Muscle	rectum
24	chr6:56224400-56230800	Weak transcription	Fetal Kidney	kidney
25	chr6:56224600-56225200	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr6:56224600-56228600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:56224600-56231000	Weak transcription	Adipose Nuclei	Adipose
28	chr6:56224800-56225200	Enhancers	Brain Cingulate Gyrus	brain
29	chr6:56224800-56225400	Weak transcription	Brain Substantia Nigra	brain
30	chr6:56224800-56226600	Weak transcription	Hela-S3	cervix
31	chr6:56224800-56228600	Weak transcription	Brain Anterior Caudate	brain
32	chr6:56225000-56228400	Weak transcription	Pancreatic Islets	Pancreatic Islet

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