Variant report

Variant	rs9848789
Chromosome Location	chr3:151058963-151058964
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr3:151058777-151059362	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
P2RY12	TF binding region

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10513387	0.88[CEU][hapmap]
rs10513393	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13321176	1.00[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs13322120	0.82[CEU][hapmap]
rs13327359	0.81[CEU][hapmap]
rs1388625	0.94[CEU][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1549829	0.88[CEU][hapmap]
rs1554120	0.88[CEU][hapmap]
rs17204437	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17204459	1.00[ASW][hapmap];0.82[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap]
rs17282940	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17282947	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17290219	0.88[CEU][hapmap]
rs17304673	0.85[CEU][hapmap];0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs28386791	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28734805	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55751359	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6780660	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6792089	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs73157938	0.88[EUR][1000 genomes]
rs73157954	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73157974	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73157991	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7633788	0.82[CEU][hapmap]
rs7633828	0.82[CEU][hapmap]
rs7634096	0.82[CEU][hapmap]
rs7637803	0.82[CEU][hapmap]
rs9289837	1.00[ASW][hapmap];0.82[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap]
rs9812617	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9814936	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9817216	1.00[CEU][hapmap];0.89[MEX][hapmap];0.94[TSI][hapmap];0.82[EUR][1000 genomes]
rs9819885	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9821749	0.82[EUR][1000 genomes]
rs9821937	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9831242	1.00[CEU][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs9834154	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9836053	0.88[CEU][hapmap]
rs9838990	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9840232	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9841430	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9844557	0.88[CEU][hapmap]
rs9853676	0.80[EUR][1000 genomes]
rs9854017	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs9855202	0.82[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap]
rs9856118	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9859552	0.82[CEU][hapmap]
rs9859854	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9867524	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9868643	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9871624	0.88[CEU][hapmap]
rs9872645	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9875587	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9876268	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9876933	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9880395	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9881116	1.00[ASW][hapmap];0.94[CEU][hapmap];0.89[MEX][hapmap];0.94[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv829757	chr3:151044880-151226442	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9848789	P2RY12	cis	normal skin	skin_eQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151045600-151063600	Weak transcription	Brain Angular Gyrus	brain
2	chr3:151050000-151063600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:151057000-151063200	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:151057800-151059200	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr3:151058400-151059000	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr3:151058400-151059000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr3:151058400-151059000	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr3:151058400-151059200	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr3:151058800-151059200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:151058800-151063600	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links