Variant report

Variant	rs28541670
Chromosome Location	chr4:99553054-99553055
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:99551429..99553596-chr4:99563119..99565613,2	K562	blood:

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs13435520	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28412266	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28604404	0.82[AMR][1000 genomes];0.82[EUR][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:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99535600-99554200	Enhancers	Brain Substantia Nigra	brain
2	chr4:99546400-99554200	Enhancers	Brain Angular Gyrus	brain
3	chr4:99546600-99554000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
4	chr4:99546600-99560000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr4:99546800-99559800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr4:99547200-99554400	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr4:99547800-99559200	Weak transcription	Stomach Mucosa	stomach
8	chr4:99548000-99560600	Weak transcription	Right Atrium	heart
9	chr4:99548000-99569200	Weak transcription	Gastric	stomach
10	chr4:99548000-99577000	Weak transcription	Esophagus	oesophagus
11	chr4:99548400-99563600	Weak transcription	HSMM	muscle
12	chr4:99549200-99554000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr4:99549600-99563200	Weak transcription	HMEC	breast
14	chr4:99549800-99563600	Weak transcription	NHEK	skin
15	chr4:99550000-99553200	Weak transcription	NH-A	brain
16	chr4:99550000-99553800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr4:99550000-99563600	Weak transcription	HUVEC	blood vessel
18	chr4:99550400-99554200	Enhancers	Brain Hippocampus Middle	brain
19	chr4:99550400-99554800	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr4:99550600-99555000	Enhancers	Fetal Brain Male	brain
21	chr4:99550800-99553400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr4:99551000-99554600	Enhancers	Brain Cingulate Gyrus	brain
23	chr4:99551200-99553800	Enhancers	Fetal Brain Female	brain
24	chr4:99551200-99554200	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr4:99551200-99554400	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr4:99551400-99553200	Enhancers	NHLF	lung
27	chr4:99551400-99553600	Enhancers	Fetal Heart	heart
28	chr4:99551400-99554200	Enhancers	NHDF-Ad	bronchial
29	chr4:99551400-99554400	Enhancers	Brain Anterior Caudate	brain
30	chr4:99551400-99554400	Enhancers	Ovary	ovary
31	chr4:99551600-99553600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr4:99551600-99554000	Enhancers	Osteobl	bone
33	chr4:99551600-99555000	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr4:99551800-99553200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr4:99551800-99553400	Enhancers	Brain Germinal Matrix	brain
36	chr4:99551800-99563200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr4:99552000-99554200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
38	chr4:99552200-99554000	Weak transcription	Colon Smooth Muscle	Colon
39	chr4:99552200-99554200	Enhancers	Pancreas	Pancrea
40	chr4:99552200-99559400	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr4:99552400-99554000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr4:99552400-99556000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr4:99552600-99553200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr4:99552600-99553400	Enhancers	Lung	lung
45	chr4:99552600-99554200	Enhancers	Spleen	Spleen
46	chr4:99552600-99569600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr4:99552800-99553400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr4:99552800-99554000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr4:99552800-99559200	Weak transcription	Placenta	Placenta
50	chr4:99552800-99560000	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links