Variant report

Variant	rs1106894
Chromosome Location	chr5:147053189-147053190
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1106895	0.90[AFR][1000 genomes]
rs1159523	1.00[CHD][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];0.88[ASN][1000 genomes]
rs12658788	0.81[ASW][hapmap]
rs12658834	0.81[ASW][hapmap]
rs1347138	0.88[ASN][1000 genomes]
rs1529685	0.89[ASN][1000 genomes]
rs1529686	0.89[ASN][1000 genomes]
rs1529687	0.89[ASN][1000 genomes]
rs1529688	0.89[ASN][1000 genomes]
rs17096666	0.84[ASN][1000 genomes]
rs17106994	0.84[ASN][1000 genomes]
rs17106995	0.89[ASN][1000 genomes]
rs17107039	0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs17107043	0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs2304036	0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs34100034	0.83[ASN][1000 genomes]
rs35416673	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs36119468	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3765006	0.89[ASN][1000 genomes]
rs4382156	0.89[ASN][1000 genomes]
rs4382157	0.89[ASN][1000 genomes]
rs4577681	0.87[ASN][1000 genomes]
rs57061855	0.84[ASN][1000 genomes]
rs59225792	0.89[ASN][1000 genomes]
rs73268153	0.84[ASN][1000 genomes]
rs73268172	0.90[ASN][1000 genomes]
rs7706575	0.89[ASN][1000 genomes]
rs7725758	0.89[ASN][1000 genomes]
rs7729949	0.89[ASN][1000 genomes]
rs9325048	0.81[ASW][hapmap]
rs9686194	0.83[ASN][1000 genomes]
rs9686196	0.83[ASN][1000 genomes]
rs9686961	0.89[ASN][1000 genomes]
rs9918128	0.89[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs1106894	JAKMIP2	cis	cerebellum	SCAN
rs1106894	TNIP1	cis	cerebellum	SCAN
rs1106894	CAMK2A	cis	cerebellum	SCAN
rs1106894	JAKMIP2	cis	parietal	SCAN
rs1106894	CD74	cis	parietal	SCAN
rs1106894	POU4F3	cis	parietal	SCAN

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:147038800-147053200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr5:147039600-147061800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr5:147042000-147076800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr5:147049400-147054000	Weak transcription	Stomach Smooth Muscle	stomach
5	chr5:147051000-147054600	Enhancers	Liver	Liver
6	chr5:147051400-147068200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr5:147051400-147070400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr5:147051400-147076600	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr5:147051600-147053200	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr5:147051600-147053200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr5:147051600-147053400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr5:147051600-147057600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr5:147051600-147066600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr5:147051600-147075600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr5:147051600-147077000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr5:147051600-147078400	Weak transcription	Primary T cells from cord blood	blood
17	chr5:147051800-147076800	Weak transcription	Primary hematopoietic stem cells	blood
18	chr5:147052000-147053600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr5:147052000-147059200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr5:147052000-147059800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr5:147052200-147054200	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr5:147052200-147054400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr5:147052200-147054600	Enhancers	Brain Anterior Caudate	brain
24	chr5:147052400-147054400	Enhancers	Fetal Muscle Leg	muscle
25	chr5:147052400-147054600	Enhancers	Brain Angular Gyrus	brain
26	chr5:147052400-147054600	Enhancers	Brain Substantia Nigra	brain
27	chr5:147052400-147055000	Enhancers	Fetal Lung	lung
28	chr5:147052600-147053200	Enhancers	Fetal Thymus	thymus
29	chr5:147052600-147053200	Enhancers	Thymus	Thymus
30	chr5:147052600-147053400	Enhancers	Fetal Heart	heart
31	chr5:147052600-147054400	Enhancers	Fetal Brain Female	brain
32	chr5:147052600-147054600	Enhancers	Brain Hippocampus Middle	brain
33	chr5:147052800-147053400	Enhancers	Brain Germinal Matrix	brain
34	chr5:147052800-147054000	Enhancers	Stomach Mucosa	stomach
35	chr5:147052800-147054600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr5:147052800-147054600	Enhancers	Fetal Stomach	stomach
37	chr5:147052800-147055000	Enhancers	Brain Inferior Temporal Lobe	brain
38	chr5:147052800-147055000	Enhancers	Fetal Brain Male	brain
39	chr5:147052800-147055400	Enhancers	Brain Cingulate Gyrus	brain
40	chr5:147053000-147053200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr5:147053000-147053200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr5:147053000-147053200	Enhancers	Gastric	stomach
43	chr5:147053000-147053200	Enhancers	Left Ventricle	heart
44	chr5:147053000-147053200	Enhancers	Right Atrium	heart
45	chr5:147053000-147054000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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