Variant report

Variant	rs58110828
Chromosome Location	chr19:52909959-52909960
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	chr19:52908988..52911904-chr19:52916328..52918022,2	K562	blood:

Variant related genes	Relation type
ENSG00000167555	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs57295520	1.00[AFR][1000 genomes]
rs61997201	0.86[AFR][1000 genomes]
rs73586055	1.00[AFR][1000 genomes]
rs73586059	0.96[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833873	chr19:52788939-52937281	Weak transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1066537	chr19:52794424-53044977	Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic 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	24 gene(s)	inside rSNPs	diseases
3	nsv544060	chr19:52794424-53044977	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv912300	chr19:52832830-52928039	Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv912301	chr19:52835210-52914233	ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv912302	chr19:52859828-52928039	Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	nsv912303	chr19:52874140-52928039	ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv521079	chr19:52886137-52917626	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv828615	chr19:52888767-52936555	ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	esv2762048	chr19:52895166-52997571	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	esv3412133	chr19:52907745-52935907	ZNF genes & repeats Weak transcription Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52901800-52912600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr19:52902000-52913800	Weak transcription	Fetal Heart	heart
3	chr19:52902200-52913800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr19:52902200-52917400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr19:52902200-52919200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr19:52902400-52910400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr19:52902400-52913400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr19:52902400-52913400	Strong transcription	Fetal Muscle Trunk	muscle
9	chr19:52902400-52917600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr19:52902600-52910400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
11	chr19:52902600-52913000	Strong transcription	Fetal Stomach	stomach
12	chr19:52902600-52913600	Strong transcription	Stomach Smooth Muscle	stomach
13	chr19:52902600-52914000	ZNF genes & repeats	Lung	lung
14	chr19:52902600-52917600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr19:52902600-52918200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
16	chr19:52902800-52912800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr19:52902800-52913400	Strong transcription	Brain Inferior Temporal Lobe	brain
18	chr19:52902800-52914000	Strong transcription	Cortex derived primary cultured neurospheres	brain
19	chr19:52902800-52914200	Strong transcription	Brain Anterior Caudate	brain
20	chr19:52902800-52914200	Strong transcription	Skeletal Muscle Female	skeletal muscle
21	chr19:52902800-52915600	Strong transcription	HSMMtube	muscle
22	chr19:52902800-52924200	ZNF genes & repeats	Liver	Liver
23	chr19:52903000-52911800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
24	chr19:52903000-52913000	Strong transcription	Fetal Muscle Leg	muscle
25	chr19:52903000-52913600	Strong transcription	Brain Cingulate Gyrus	brain
26	chr19:52903000-52913600	Strong transcription	Brain Hippocampus Middle	brain
27	chr19:52903000-52914000	ZNF genes & repeats	Ovary	ovary
28	chr19:52903000-52916200	Strong transcription	Skeletal Muscle Male	skeletal muscle
29	chr19:52903200-52911800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr19:52903200-52916800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
31	chr19:52903400-52912600	Strong transcription	Dnd41	blood
32	chr19:52903600-52912200	Strong transcription	Fetal Lung	lung
33	chr19:52903600-52912600	Strong transcription	Rectal Smooth Muscle	rectum
34	chr19:52903800-52910600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr19:52904200-52914000	ZNF genes & repeats	Fetal Intestine Small	intestine
36	chr19:52904200-52917200	Strong transcription	Brain Germinal Matrix	brain
37	chr19:52904200-52917600	Strong transcription	Right Ventricle	heart
38	chr19:52904400-52910600	Strong transcription	NH-A	brain
39	chr19:52904400-52913400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr19:52904400-52916200	Strong transcription	Muscle Satellite Cultured Cells	--
41	chr19:52904400-52916200	Strong transcription	Brain Angular Gyrus	brain
42	chr19:52904400-52916600	Strong transcription	Placenta Amnion	Placenta Amnion
43	chr19:52905000-52910200	Strong transcription	Fetal Kidney	kidney
44	chr19:52905000-52910800	ZNF genes & repeats	Adipose Nuclei	Adipose
45	chr19:52905000-52911000	Strong transcription	Brain Substantia Nigra	brain
46	chr19:52905000-52913000	Strong transcription	Fetal Brain Female	brain
47	chr19:52905000-52916000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
48	chr19:52905000-52916800	ZNF genes & repeats	Spleen	Spleen
49	chr19:52905000-52920800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr19:52905000-52923800	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood

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