Variant report

Variant	rs59475336
Chromosome Location	chr3:56840305-56840306
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	chr3:56839184..56841746-chr3:56860338..56862869,2	MCF-7	breast:

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs17057321	0.95[ASN][1000 genomes]
rs17216782	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2047626	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59870621	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73833732	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7433156	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7622820	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[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	nsv876818	chr3:56805376-56924711	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56836400-56845800	Weak transcription	Lung	lung
2	chr3:56836600-56845200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr3:56836800-56844400	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr3:56836800-56844600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:56836800-56845000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:56836800-56845400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr3:56836800-56846000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:56836800-56846800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr3:56837000-56844000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr3:56837000-56844200	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr3:56837000-56844200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:56837000-56844600	Weak transcription	Primary T cells from cord blood	blood
13	chr3:56837000-56844800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr3:56837200-56844000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr3:56837200-56844200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr3:56838200-56841000	Enhancers	Brain Hippocampus Middle	brain
17	chr3:56838200-56841000	Enhancers	Brain Substantia Nigra	brain
18	chr3:56838400-56840800	Enhancers	Brain Cingulate Gyrus	brain
19	chr3:56838400-56840800	Enhancers	Colon Smooth Muscle	Colon
20	chr3:56838400-56841400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:56838600-56841000	Enhancers	Brain Anterior Caudate	brain
22	chr3:56838600-56841000	Enhancers	Fetal Muscle Leg	muscle
23	chr3:56838600-56841000	Enhancers	Placenta	Placenta
24	chr3:56838800-56840800	Enhancers	Brain Angular Gyrus	brain
25	chr3:56838800-56841000	Enhancers	Fetal Brain Female	brain
26	chr3:56838800-56841200	Enhancers	Fetal Muscle Trunk	muscle
27	chr3:56839000-56841000	Enhancers	Fetal Stomach	stomach
28	chr3:56839200-56841000	Enhancers	Fetal Brain Male	brain
29	chr3:56839200-56841200	Enhancers	Cortex derived primary cultured neurospheres	brain
30	chr3:56839200-56845000	Weak transcription	Fetal Thymus	thymus
31	chr3:56839200-56845000	Weak transcription	HepG2	liver
32	chr3:56839400-56841000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr3:56839600-56840800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
34	chr3:56839800-56840800	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr3:56839800-56840800	Enhancers	Brain Germinal Matrix	brain
36	chr3:56839800-56845600	Weak transcription	Fetal Kidney	kidney
37	chr3:56840000-56840400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
38	chr3:56840200-56840600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr3:56840200-56840600	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr3:56840200-56840600	Enhancers	Rectal Smooth Muscle	rectum
41	chr3:56840200-56840800	Enhancers	Esophagus	oesophagus
42	chr3:56840200-56840800	Enhancers	Fetal Heart	heart
43	chr3:56840200-56840800	Enhancers	Left Ventricle	heart
44	chr3:56840200-56840800	Genic enhancers	Right Ventricle	heart

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