Variant report

Variant	rs1106895
Chromosome Location	chr5:147053270-147053271
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10045944	0.84[EUR][1000 genomes]
rs10051794	0.84[EUR][1000 genomes]
rs10515588	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1106894	0.90[AFR][1000 genomes]
rs1159523	0.93[CEU][hapmap];0.92[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1347138	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1529685	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1529686	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1529687	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1529688	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17096666	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17106940	0.85[EUR][1000 genomes]
rs17106947	0.85[EUR][1000 genomes]
rs17106977	0.92[EUR][1000 genomes]
rs17106994	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17106995	0.95[EUR][1000 genomes]
rs17107039	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17107043	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2116765	1.00[CEU][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2116768	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2116769	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2304036	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34100034	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35502493	0.85[EUR][1000 genomes]
rs36119468	0.89[AFR][1000 genomes]
rs3763093	0.87[EUR][1000 genomes]
rs3763094	0.87[EUR][1000 genomes]
rs3765006	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4382156	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4382157	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4577681	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4635925	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4705181	0.84[EUR][1000 genomes]
rs55851807	0.85[EUR][1000 genomes]
rs56295956	0.85[EUR][1000 genomes]
rs56384964	0.86[EUR][1000 genomes]
rs57061855	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58595614	0.85[EUR][1000 genomes]
rs59225792	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61508445	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6580478	0.84[EUR][1000 genomes]
rs6580480	0.86[EUR][1000 genomes]
rs6860404	0.84[EUR][1000 genomes]
rs6887481	1.00[CEU][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6892958	0.82[EUR][1000 genomes]
rs73268153	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73268172	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7380570	0.84[EUR][1000 genomes]
rs7704474	0.84[EUR][1000 genomes]
rs7705148	0.84[EUR][1000 genomes]
rs7706575	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7711029	0.85[EUR][1000 genomes]
rs7711042	0.84[EUR][1000 genomes]
rs7725758	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7729949	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8180519	0.85[EUR][1000 genomes]
rs9325047	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9686194	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9686196	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9686961	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs981644	0.84[EUR][1000 genomes]
rs9918128	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs999953	0.93[CEU][hapmap];0.93[TSI][hapmap];0.86[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1106895	JAKMIP2	cis	parietal	SCAN
rs1106895	CAMK2A	cis	cerebellum	SCAN
rs1106895	HTR4	cis	cerebellum	SCAN
rs1106895	JAKMIP2	cis	cerebellum	SCAN

Chromatin state (count:35 , 50 per page) page: 1

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

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links