Variant report

Variant	rs17090411
Chromosome Location	chr4:62069356-62069357
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs17090409	0.90[AFR][1000 genomes]
rs17090415	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57554118	1.00[AMR][1000 genomes]
rs59564400	0.87[AFR][1000 genomes]
rs60088708	1.00[AMR][1000 genomes]
rs6822080	1.00[AMR][1000 genomes]
rs6826967	1.00[MEX][hapmap]
rs6851337	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs874859	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	nsv879074	chr4:62000391-62109770	Bivalent Enhancer Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62065400-62070400	Active TSS	Brain Angular Gyrus	brain
2	chr4:62065400-62070400	Active TSS	Brain Anterior Caudate	brain
3	chr4:62065400-62071000	Active TSS	Brain Inferior Temporal Lobe	brain
4	chr4:62065600-62069400	Active TSS	Aorta	Aorta
5	chr4:62065600-62069400	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
6	chr4:62065600-62070200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
7	chr4:62065600-62070800	Active TSS	Brain Substantia Nigra	brain
8	chr4:62065800-62069400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:62065800-62069600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr4:62065800-62070200	Active TSS	Fetal Brain Male	brain
11	chr4:62067200-62069800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr4:62067400-62069400	Bivalent/Poised TSS	Fetal Intestine Large	intestine
13	chr4:62067800-62069400	Bivalent/Poised TSS	Fetal Intestine Small	intestine
14	chr4:62067800-62071000	Active TSS	Brain Cingulate Gyrus	brain
15	chr4:62068200-62069400	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
16	chr4:62068400-62069400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
17	chr4:62068600-62070600	Active TSS	Brain Germinal Matrix	brain
18	chr4:62068800-62069400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
19	chr4:62068800-62069400	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
20	chr4:62068800-62069400	Bivalent/Poised TSS	Fetal Brain Female	brain
21	chr4:62068800-62069400	Flanking Bivalent TSS/Enh	Fetal Lung	lung
22	chr4:62068800-62069600	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
23	chr4:62069000-62069400	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
24	chr4:62069000-62069400	Flanking Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr4:62069000-62069400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr4:62069000-62069400	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
27	chr4:62069000-62069400	Bivalent Enhancer	Primary hematopoietic stem cells	blood
28	chr4:62069000-62069400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr4:62069000-62069400	Flanking Active TSS	Fetal Heart	heart
30	chr4:62069000-62069600	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
31	chr4:62069000-62069600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
32	chr4:62069000-62069600	Active TSS	Fetal Adrenal Gland	Adrenal Gland
33	chr4:62069000-62070000	Active TSS	Fetal Stomach	stomach
34	chr4:62069000-62070000	Enhancers	Placenta Amnion	Placenta Amnion
35	chr4:62069000-62070400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr4:62069200-62069400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
37	chr4:62069200-62069400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr4:62069200-62069400	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
39	chr4:62069200-62069400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr4:62069200-62069400	Flanking Active TSS	Fetal Kidney	kidney
41	chr4:62069200-62069400	Active TSS	Fetal Muscle Trunk	muscle
42	chr4:62069200-62069400	Active TSS	Fetal Muscle Leg	muscle
43	chr4:62069200-62069400	Active TSS	Rectal Smooth Muscle	rectum
44	chr4:62069200-62069400	Flanking Active TSS	NH-A	brain
45	chr4:62069200-62069600	Flanking Active TSS	Brain Hippocampus Middle	brain
46	chr4:62069200-62069800	Flanking Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr4:62069200-62070000	Active TSS	Rectal Mucosa Donor 29	rectum
48	chr4:62069200-62070600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr4:62069200-62070600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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