Variant report

Variant	rs13001890
Chromosome Location	chr2:178171809-178171810
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10179735	0.94[CEU][hapmap]
rs10179975	0.94[CEU][hapmap];0.81[CHD][hapmap]
rs10207932	0.94[CEU][hapmap];0.81[CHD][hapmap]
rs10930784	0.94[CEU][hapmap];0.81[CHD][hapmap]
rs10930785	0.94[CEU][hapmap]
rs12623239	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.96[TSI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12987686	0.94[CEU][hapmap]
rs12992747	0.85[EUR][1000 genomes]
rs13002088	1.00[CEU][hapmap];0.87[CHD][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13017003	1.00[JPT][hapmap]
rs13410559	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1377491	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs1453376	1.00[CEU][hapmap]
rs1463288	1.00[CEU][hapmap]
rs1466208	1.00[CEU][hapmap]
rs1551288	1.00[CEU][hapmap]
rs1551289	1.00[CEU][hapmap]
rs1597958	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1597959	1.00[CEU][hapmap]
rs1869358	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1901828	1.00[CEU][hapmap]
rs1973047	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167904	1.00[CEU][hapmap]
rs2364733	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2364847	0.94[CEU][hapmap]
rs2364848	0.94[CEU][hapmap];0.81[CHD][hapmap];0.84[MEX][hapmap]
rs2444563	0.94[CEU][hapmap]
rs2602527	1.00[CEU][hapmap]
rs2602528	1.00[CEU][hapmap]
rs2706143	1.00[CEU][hapmap]
rs2706145	1.00[CEU][hapmap]
rs2706146	1.00[CEU][hapmap]
rs2706147	1.00[CEU][hapmap]
rs2706156	1.00[CEU][hapmap]
rs2706158	1.00[CEU][hapmap]
rs2706162	1.00[CEU][hapmap]
rs2886194	1.00[JPT][hapmap]
rs4130304	0.94[CEU][hapmap]
rs4893930	0.94[CEU][hapmap]
rs6414095	1.00[CEU][hapmap];0.87[CHD][hapmap]
rs6731409	0.85[EUR][1000 genomes]
rs6732256	1.00[CEU][hapmap]
rs7559715	1.00[CEU][hapmap]
rs7573583	1.00[CEU][hapmap]
rs7575328	0.94[CEU][hapmap]
rs952034	1.00[CEU][hapmap]
rs9941681	0.89[CEU][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13001890	PDE11A	cis	parietal	SCAN

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:178146600-178180400	Weak transcription	Esophagus	oesophagus
2	chr2:178147800-178187000	Weak transcription	HSMM	muscle
3	chr2:178147800-178190800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr2:178151400-178179400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr2:178152800-178178200	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr2:178155600-178174000	Weak transcription	Primary hematopoietic stem cells	blood
7	chr2:178155800-178185200	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr2:178156400-178172000	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr2:178160400-178187200	Weak transcription	Brain Angular Gyrus	brain
10	chr2:178160800-178186000	Weak transcription	Adipose Nuclei	Adipose
11	chr2:178160800-178196200	Weak transcription	Ovary	ovary
12	chr2:178163600-178177800	Weak transcription	HepG2	liver
13	chr2:178163600-178178200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr2:178165000-178174000	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr2:178165200-178173800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr2:178165800-178187200	Weak transcription	Spleen	Spleen
17	chr2:178166600-178187000	Weak transcription	Fetal Muscle Trunk	muscle
18	chr2:178167600-178174000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr2:178167600-178174000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr2:178167600-178187000	Weak transcription	Left Ventricle	heart
21	chr2:178167800-178174000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr2:178167800-178175800	Weak transcription	Primary B cells from cord blood	blood
23	chr2:178168600-178178400	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr2:178169000-178174800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr2:178171200-178172000	Enhancers	HMEC	breast
26	chr2:178171200-178172000	Enhancers	K562	blood
27	chr2:178171200-178172000	Enhancers	NHEK	skin
28	chr2:178171200-178172400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr2:178171400-178173000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr2:178171400-178175800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr2:178171400-178175800	Enhancers	Primary T killer memory cells from peripheral blood	blood
32	chr2:178171600-178172400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr2:178171600-178172600	Enhancers	Primary T cells from cord blood	blood
34	chr2:178171600-178177600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr2:178171600-178177800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr2:178171600-178177800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr2:178171800-178174400	Enhancers	Fetal Heart	heart
38	chr2:178171800-178175600	Enhancers	Primary T helper naive cells from peripheral blood	blood
39	chr2:178171800-178176400	Enhancers	Primary T helper cells PMA-I stimulated	--

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