Variant report

Variant	rs11564399
Chromosome Location	chr18:25667970-25667971
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11564286	1.00[AMR][1000 genomes]
rs11564309	1.00[AMR][1000 genomes]
rs11564320	1.00[AMR][1000 genomes]
rs11564411	1.00[AMR][1000 genomes]
rs17493084	1.00[AMR][1000 genomes]
rs17493542	1.00[AMR][1000 genomes]
rs17493576	1.00[AMR][1000 genomes]
rs17493926	1.00[AMR][1000 genomes]
rs17494276	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17494388	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17494718	1.00[YRI][hapmap]
rs17521540	1.00[AMR][1000 genomes]
rs17522464	1.00[AMR][1000 genomes]
rs17536996	1.00[YRI][hapmap]
rs1899644	1.00[AMR][1000 genomes]
rs1899645	1.00[AMR][1000 genomes]
rs7243533	1.00[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	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25655800-25690800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:25662800-25668000	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr18:25662800-25670000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr18:25665600-25669800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr18:25665600-25671800	Weak transcription	Left Ventricle	heart
6	chr18:25666000-25668000	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr18:25666400-25668000	Enhancers	HUVEC	blood vessel
8	chr18:25666400-25668800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr18:25666400-25671000	Enhancers	HepG2	liver
10	chr18:25666600-25668000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr18:25666600-25668000	Enhancers	HSMM	muscle
12	chr18:25666800-25668600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
13	chr18:25667000-25668000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr18:25667000-25668000	Flanking Active TSS	Osteobl	bone
15	chr18:25667000-25668200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr18:25667200-25668800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
17	chr18:25667400-25668400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr18:25667400-25668400	Weak transcription	Right Ventricle	heart
19	chr18:25667400-25668800	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
20	chr18:25667400-25668800	Enhancers	Brain Angular Gyrus	brain
21	chr18:25667400-25668800	Enhancers	Brain Substantia Nigra	brain
22	chr18:25667400-25669000	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr18:25667400-25669000	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
24	chr18:25667400-25669000	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
25	chr18:25667400-25669000	Enhancers	Fetal Brain Male	brain
26	chr18:25667400-25670400	Weak transcription	Gastric	stomach
27	chr18:25667400-25671200	Enhancers	Liver	Liver
28	chr18:25667400-25672400	Enhancers	Fetal Heart	heart
29	chr18:25667600-25668000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr18:25667600-25668200	Enhancers	Brain Hippocampus Middle	brain
31	chr18:25667600-25668400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr18:25667600-25668400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr18:25667600-25668600	Enhancers	Muscle Satellite Cultured Cells	--
34	chr18:25667600-25668600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr18:25667600-25668600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr18:25667600-25669000	Enhancers	Brain Inferior Temporal Lobe	brain
37	chr18:25667600-25669000	Enhancers	NH-A	brain
38	chr18:25667600-25669200	Enhancers	Brain Cingulate Gyrus	brain
39	chr18:25667600-25669800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr18:25667600-25669800	Weak transcription	Fetal Intestine Small	intestine
41	chr18:25667600-25670200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr18:25667600-25670400	Enhancers	Brain Germinal Matrix	brain
43	chr18:25667600-25670400	Weak transcription	Right Atrium	heart
44	chr18:25667600-25672200	Enhancers	Cortex derived primary cultured neurospheres	brain
45	chr18:25667800-25668200	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr18:25667800-25668200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr18:25667800-25668200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr18:25667800-25668200	Weak transcription	Fetal Brain Female	brain
49	chr18:25667800-25668400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr18:25667800-25668600	Enhancers	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links