Variant report

Variant	rs403734
Chromosome Location	chr12:120181392-120181393
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10849695	0.82[EUR][1000 genomes]
rs11064890	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11064891	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11064892	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11064895	0.87[EUR][1000 genomes]
rs17409442	0.85[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs202983	1.00[CEU][hapmap];0.96[GIH][hapmap];0.81[MEX][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs278102	1.00[CEU][hapmap];0.88[GIH][hapmap];0.81[MEX][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes]
rs278104	0.86[EUR][1000 genomes]
rs278107	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs278112	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs278113	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs278114	0.95[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs278116	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs278126	0.88[GIH][hapmap];0.81[MEX][hapmap];0.83[TSI][hapmap]
rs434471	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45670	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131896	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs904655	0.90[MKK][hapmap];0.88[YRI][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs403734	COQ5	cis	parietal	SCAN
rs403734	PXN	cis	cerebellum	SCAN

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:120116800-120201800	Weak transcription	Fetal Heart	heart
2	chr12:120123400-120182000	Strong transcription	Dnd41	blood
3	chr12:120130800-120182200	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr12:120143800-120211200	Weak transcription	Fetal Brain Male	brain
5	chr12:120149400-120224800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr12:120151600-120196600	Weak transcription	Gastric	stomach
7	chr12:120151800-120208400	Weak transcription	Fetal Brain Female	brain
8	chr12:120151800-120218600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr12:120154800-120186000	Weak transcription	NH-A	brain
10	chr12:120154800-120209600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr12:120156600-120221400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr12:120156800-120182600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr12:120158000-120186200	Weak transcription	Brain Germinal Matrix	brain
14	chr12:120158000-120186400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr12:120163600-120186400	Weak transcription	HUVEC	blood vessel
16	chr12:120168600-120181600	Weak transcription	GM12878-XiMat	blood
17	chr12:120171800-120181600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr12:120172000-120181800	Weak transcription	Fetal Lung	lung
19	chr12:120172000-120189400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr12:120172200-120218600	Weak transcription	Fetal Kidney	kidney
21	chr12:120172400-120186200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr12:120172600-120182000	Weak transcription	Fetal Intestine Small	intestine
23	chr12:120172600-120189600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr12:120173000-120182600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr12:120173000-120194400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr12:120173200-120181800	Weak transcription	HepG2	liver
27	chr12:120173200-120182200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr12:120173200-120186000	Weak transcription	Fetal Stomach	stomach
29	chr12:120173400-120183200	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr12:120173400-120185600	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr12:120173400-120185800	Weak transcription	HMEC	breast
32	chr12:120173400-120186200	Weak transcription	Brain Angular Gyrus	brain
33	chr12:120173400-120188600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr12:120173600-120188800	Weak transcription	NHEK	skin
35	chr12:120176600-120181800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr12:120176800-120183000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr12:120177000-120183000	Strong transcription	A549	lung
38	chr12:120177200-120182600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr12:120177200-120184600	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr12:120177600-120182600	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr12:120177600-120205200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr12:120178000-120181400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr12:120178200-120205200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr12:120178400-120202200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr12:120178600-120181600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr12:120178600-120182000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
47	chr12:120178600-120182000	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr12:120178600-120182200	Strong transcription	Fetal Thymus	thymus
49	chr12:120178600-120182600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr12:120178600-120184800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links