Variant report

Variant	rs2288825
Chromosome Location	chr5:147092355-147092356
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10037768	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12652081	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4515290	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4705043	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4705044	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4705192	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7701840	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs2288825	JAKMIP2	cis	parietal	SCAN
rs2288825	CD74	cis	parietal	SCAN
rs2288825	TNIP1	cis	cerebellum	SCAN
rs2288825	CAMK2A	cis	cerebellum	SCAN
rs2288825	TNIP1	cis	parietal	SCAN
rs2288825	POU4F3	cis	parietal	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:147078600-147146000	Weak transcription	Primary T cells from cord blood	blood
2	chr5:147079600-147101200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr5:147085000-147093200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr5:147085600-147092800	Weak transcription	Brain Angular Gyrus	brain
5	chr5:147088800-147092400	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr5:147089800-147093200	Weak transcription	Brain Hippocampus Middle	brain
7	chr5:147091200-147092400	Enhancers	Stomach Mucosa	stomach
8	chr5:147091400-147093200	Weak transcription	Brain Anterior Caudate	brain
9	chr5:147091600-147092800	Enhancers	Brain Substantia Nigra	brain
10	chr5:147091600-147093200	Enhancers	Liver	Liver
11	chr5:147092000-147092400	Enhancers	Fetal Intestine Large	intestine
12	chr5:147092000-147092400	Enhancers	Fetal Intestine Small	intestine
13	chr5:147092000-147092400	Enhancers	Small Intestine	intestine
14	chr5:147092000-147092600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr5:147092000-147092600	Active TSS	Monocytes-CD14+_RO01746	blood
16	chr5:147092000-147093800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr5:147092200-147092400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
18	chr5:147092200-147092600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
19	chr5:147092200-147092800	Flanking Active TSS	Primary hematopoietic stem cells	blood
20	chr5:147092200-147093600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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