Variant report

Variant	rs28604404
Chromosome Location	chr4:99546163-99546164
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13435520	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28412266	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28541670	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6532753	0.92[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	nsv594940	chr4:99542475-99573350	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99535600-99554200	Enhancers	Brain Substantia Nigra	brain
2	chr4:99539000-99546400	Weak transcription	Fetal Thymus	thymus
3	chr4:99539000-99547200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:99539200-99546600	Weak transcription	HSMM	muscle
5	chr4:99539200-99547200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr4:99539200-99547200	Weak transcription	Right Atrium	heart
7	chr4:99539200-99547600	Weak transcription	Gastric	stomach
8	chr4:99539200-99547600	Weak transcription	Left Ventricle	heart
9	chr4:99539200-99547600	Weak transcription	Right Ventricle	heart
10	chr4:99539200-99547800	Weak transcription	Fetal Stomach	stomach
11	chr4:99540000-99547400	Weak transcription	Fetal Lung	lung
12	chr4:99541800-99546800	Weak transcription	Fetal Brain Female	brain
13	chr4:99542000-99546400	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr4:99542000-99546400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr4:99542000-99547200	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr4:99542000-99547200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr4:99542000-99547200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr4:99542200-99546600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr4:99542200-99547600	Weak transcription	Fetal Brain Male	brain
20	chr4:99542400-99546600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr4:99542400-99547200	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr4:99542600-99546400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr4:99543200-99547200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr4:99543400-99547200	Enhancers	NHDF-Ad	bronchial
25	chr4:99543400-99547200	Enhancers	NHLF	lung
26	chr4:99543400-99549400	Enhancers	Brain Hippocampus Middle	brain
27	chr4:99543400-99550000	Enhancers	Brain Cingulate Gyrus	brain
28	chr4:99543600-99546400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr4:99543600-99547200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr4:99543800-99548200	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr4:99543800-99550000	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr4:99544000-99550000	Enhancers	Muscle Satellite Cultured Cells	--
33	chr4:99544000-99552400	Weak transcription	Thymus	Thymus
34	chr4:99544200-99546600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr4:99544200-99546600	Enhancers	NHEK	skin
36	chr4:99544200-99547200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
37	chr4:99544200-99547400	Enhancers	Osteobl	bone
38	chr4:99544400-99546600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr4:99544400-99546600	Weak transcription	Brain Anterior Caudate	brain
40	chr4:99544400-99547800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr4:99544400-99548400	Enhancers	Primary T helper cells fromperipheralblood	blood
42	chr4:99544400-99551200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr4:99544600-99547200	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr4:99544600-99547200	Weak transcription	Primary B cells from cord blood	blood
45	chr4:99544600-99547800	Weak transcription	Brain Germinal Matrix	brain
46	chr4:99544800-99546800	Enhancers	Primary T cells from cord blood	blood
47	chr4:99544800-99547400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr4:99544800-99548600	Weak transcription	Small Intestine	intestine
49	chr4:99544800-99549000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr4:99544800-99550000	Enhancers	NH-A	brain

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