Variant report

Variant	rs59934724
Chromosome Location	chr20:25659003-25659004
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:25658816..25662008-chr20:25664532..25667896,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000130684	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs16987989	1.00[AMR][1000 genomes]
rs56791487	0.83[AMR][1000 genomes]
rs57648416	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57796425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57830607	0.83[AMR][1000 genomes]
rs57923046	0.83[AMR][1000 genomes]
rs58190741	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58516525	0.83[AMR][1000 genomes]
rs58698458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59370837	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60003095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60010356	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60114700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60146944	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60318677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60678917	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60719275	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60744587	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60838372	0.83[AMR][1000 genomes]
rs60871577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9941766	0.93[AFR][1000 genomes];1.00[AMR][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	nsv912834	chr20:25615272-25756336	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25651600-25659600	Strong transcription	Fetal Brain Female	brain
2	chr20:25652000-25659600	Strong transcription	Brain Germinal Matrix	brain
3	chr20:25653000-25663600	Strong transcription	HSMM	muscle
4	chr20:25653200-25659600	Strong transcription	Fetal Intestine Small	intestine
5	chr20:25653200-25662800	Strong transcription	Fetal Lung	lung
6	chr20:25653400-25659200	Strong transcription	Primary hematopoietic stem cells	blood
7	chr20:25653400-25659400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
8	chr20:25653400-25659600	Strong transcription	Brain Angular Gyrus	brain
9	chr20:25653400-25659600	Strong transcription	Fetal Muscle Trunk	muscle
10	chr20:25653400-25659600	Strong transcription	Ovary	ovary
11	chr20:25653400-25659600	Strong transcription	Skeletal Muscle Male	skeletal muscle
12	chr20:25653400-25659600	Strong transcription	Skeletal Muscle Female	skeletal muscle
13	chr20:25653400-25661000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr20:25653400-25662400	Strong transcription	Liver	Liver
15	chr20:25653400-25663600	Strong transcription	Dnd41	blood
16	chr20:25653400-25664200	Strong transcription	Stomach Smooth Muscle	stomach
17	chr20:25653600-25659600	Strong transcription	Primary T cells from cord blood	blood
18	chr20:25653600-25659600	Strong transcription	Fetal Intestine Large	intestine
19	chr20:25653600-25659600	Strong transcription	Fetal Muscle Leg	muscle
20	chr20:25653600-25659600	Strong transcription	Fetal Thymus	thymus
21	chr20:25653600-25659600	Strong transcription	Left Ventricle	heart
22	chr20:25653600-25660000	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr20:25653600-25660200	Strong transcription	Primary B cells from peripheral blood	blood
24	chr20:25653600-25662600	Strong transcription	HUES64 Cell Line	embryonic stem cell
25	chr20:25653600-25663200	Strong transcription	HepG2	liver
26	chr20:25653800-25659600	Strong transcription	Primary T helper cells fromperipheralblood	blood
27	chr20:25653800-25659600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr20:25653800-25659600	Strong transcription	Duodenum Smooth Muscle	Duodenum
29	chr20:25653800-25664200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr20:25654000-25659600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr20:25654000-25659600	Strong transcription	Sigmoid Colon	Sigmoid Colon
32	chr20:25654000-25659600	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr20:25654000-25662600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr20:25654000-25663800	Weak transcription	Small Intestine	intestine
35	chr20:25654200-25659600	Strong transcription	Thymus	Thymus
36	chr20:25654400-25659600	Strong transcription	Lung	lung
37	chr20:25655000-25661400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr20:25656400-25662600	Strong transcription	Adipose Nuclei	Adipose
39	chr20:25656600-25667200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr20:25656800-25660800	Weak transcription	NH-A	brain
41	chr20:25657200-25659400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr20:25657200-25664400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr20:25657200-25666000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr20:25657200-25667200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr20:25657200-25674200	Weak transcription	Fetal Heart	heart
46	chr20:25657400-25659200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr20:25657400-25659200	Weak transcription	Aorta	Aorta
48	chr20:25657400-25661400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr20:25657400-25661400	Weak transcription	Primary B cells from cord blood	blood
50	chr20:25657400-25662000	Strong transcription	Brain Anterior Caudate	brain

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