Variant report

Variant	rs10820995
Chromosome Location	chr9:95355719-95355720
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:95355167..95358650-chr9:95359849..95362107,3	K562	blood:
2	chr9:95354681..95356667-chr9:95358553..95361349,2	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10115976	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10117603	0.86[EUR][1000 genomes]
rs10820973	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs10820978	0.83[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs10820982	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10992348	1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs10992350	1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs10992359	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12347857	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12350198	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12350842	1.00[CEU][hapmap]
rs12378023	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1951849	0.81[EUR][1000 genomes]
rs4743875	0.91[LWK][hapmap];0.80[MKK][hapmap];0.80[AFR][1000 genomes]
rs4744140	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56168105	0.85[EUR][1000 genomes]
rs6479425	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7020104	0.91[LWK][hapmap];0.80[MKK][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes]
rs7027998	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7036459	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.89[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7037068	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7862677	0.87[EUR][1000 genomes]
rs7872739	0.83[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs7875681	0.83[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs9695754	0.94[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893573	chr9:94974188-95355719	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1052846	chr9:95291909-95366109	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs10820995	CENPP	cis	cerebellum	SCAN
rs10820995	CENPP	cis	Muscle Skeletal	GTEx
rs10820995	NOL8	cis	cerebellum	SCAN
rs10820995	CENPP	cis	Adipose Subcutaneous	GTEx
rs10820995	CENPP	cis	Thyroid	GTEx
rs10820995	CENPP	cis	parietal	SCAN
rs10820995	ZNF484	cis	parietal	SCAN
rs10820995	CENPP	cis	Artery Aorta	GTEx
rs10820995	CENPP	cis	Nerve Tibial	GTEx
rs10820995	CENPP	cis	Esophagus Muscularis	GTEx
rs10820995	CENPP	cis	Artery Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95347600-95365800	Weak transcription	Thymus	Thymus
2	chr9:95347800-95364000	Weak transcription	Left Ventricle	heart
3	chr9:95351800-95356600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr9:95352800-95356200	Weak transcription	Brain Hippocampus Middle	brain
5	chr9:95353000-95362000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:95353200-95359400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr9:95353200-95360600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr9:95354000-95358400	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr9:95354000-95358600	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr9:95354000-95362200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr9:95355000-95356400	Enhancers	HSMM	muscle
12	chr9:95355000-95356400	Enhancers	HSMMtube	muscle
13	chr9:95355000-95356400	Enhancers	Osteobl	bone
14	chr9:95355000-95356600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr9:95355000-95356600	Enhancers	Fetal Lung	lung
16	chr9:95355000-95356600	Enhancers	Fetal Stomach	stomach
17	chr9:95355200-95355800	Enhancers	Primary hematopoietic stem cells	blood
18	chr9:95355200-95356000	Enhancers	Ovary	ovary
19	chr9:95355200-95356400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:95355200-95356800	Enhancers	Stomach Smooth Muscle	stomach
21	chr9:95355400-95356000	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr9:95355400-95356400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr9:95355400-95356400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr9:95355400-95356400	Enhancers	NHDF-Ad	bronchial
25	chr9:95355400-95356600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr9:95355400-95356600	Enhancers	Fetal Muscle Leg	muscle
27	chr9:95355400-95356800	Enhancers	Colon Smooth Muscle	Colon
28	chr9:95355600-95356400	Enhancers	Adipose Nuclei	Adipose
29	chr9:95355600-95357400	Weak transcription	Liver	Liver
30	chr9:95355600-95360400	Weak transcription	Fetal Muscle Trunk	muscle
31	chr9:95355600-95360400	Weak transcription	Lung	lung
32	chr9:95355600-95360400	Weak transcription	Right Atrium	heart
33	chr9:95355600-95360400	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr9:95355600-95362000	Weak transcription	Aorta	Aorta
35	chr9:95355600-95362800	Weak transcription	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links