Variant report

Variant	rs539468943
Chromosome Location	chr3:88050121-88050122
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 2 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877146	chr3:87983962-88159835	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases
2	nsv536635	chr3:88049304-88088520	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:88046800-88054400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr3:88048600-88054200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:88049800-88050200	Active TSS	iPS-15b Cell Line	embryonic stem cell
4	chr3:88049800-88050200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr3:88049800-88050200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:88049800-88050200	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr3:88049800-88050400	Active TSS	ES-I3 Cell Line	embryonic stem cell
8	chr3:88049800-88050400	Active TSS	Right Atrium	heart
9	chr3:88049800-88050600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:88049800-88050600	Active TSS	Brain Anterior Caudate	brain
11	chr3:88049800-88050600	Active TSS	Brain Inferior Temporal Lobe	brain
12	chr3:88049800-88050600	Active TSS	Brain Substantia Nigra	brain
13	chr3:88049800-88050600	Active TSS	Duodenum Smooth Muscle	Duodenum
14	chr3:88049800-88050600	Active TSS	Pancreatic Islets	Pancreatic Islet
15	chr3:88050000-88050200	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr3:88050000-88050200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
17	chr3:88050000-88050200	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
18	chr3:88050000-88050200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr3:88050000-88050200	Active TSS	Brain Germinal Matrix	brain
20	chr3:88050000-88050200	Active TSS	Esophagus	oesophagus
21	chr3:88050000-88050200	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
22	chr3:88050000-88050200	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
23	chr3:88050000-88050200	Active TSS	Fetal Muscle Trunk	muscle
24	chr3:88050000-88050200	Flanking Active TSS	Placenta	Placenta
25	chr3:88050000-88050200	Active TSS	Gastric	stomach
26	chr3:88050000-88050200	Flanking Active TSS	Right Ventricle	heart
27	chr3:88050000-88050200	Active TSS	Skeletal Muscle Male	skeletal muscle
28	chr3:88050000-88050200	Bivalent Enhancer	Small Intestine	intestine
29	chr3:88050000-88050200	Bivalent/Poised TSS	HSMM	muscle
30	chr3:88050000-88050400	Enhancers	H1 Cell Line	embryonic stem cell
31	chr3:88050000-88050400	Active TSS	HUES6 Cell Line	embryonic stem cell
32	chr3:88050000-88050400	Active TSS	Breast Myoepithelial Primary Cells	Breast
33	chr3:88050000-88050400	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr3:88050000-88050400	Flanking Active TSS	Primary hematopoietic stem cells	blood
35	chr3:88050000-88050400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
36	chr3:88050000-88050400	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr3:88050000-88050400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:88050000-88050400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr3:88050000-88050400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
40	chr3:88050000-88050400	Flanking Active TSS	Adipose Nuclei	Adipose
41	chr3:88050000-88050400	Flanking Active TSS	Liver	Liver
42	chr3:88050000-88050400	Active TSS	Brain Hippocampus Middle	brain
43	chr3:88050000-88050400	Flanking Active TSS	Duodenum Mucosa	Duodenum
44	chr3:88050000-88050400	Active TSS	Fetal Brain Female	brain
45	chr3:88050000-88050400	Enhancers	Fetal Heart	heart
46	chr3:88050000-88050400	Active TSS	Fetal Lung	lung
47	chr3:88050000-88050400	Active TSS	Fetal Stomach	stomach
48	chr3:88050000-88050400	Active TSS	Left Ventricle	heart
49	chr3:88050000-88050400	Active TSS	Psoas Muscle	Psoas
50	chr3:88050000-88050400	Active TSS	Rectal Mucosa Donor 29	rectum

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