Variant report

Variant	rs7868651
Chromosome Location	chr9:95555939-95555940
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:95490525..95493250-chr9:95553271..95556888,4	MCF-7	breast:
2	chr3:12527533..12529620-chr9:95554270..95556592,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10117377	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821009	0.95[JPT][hapmap]
rs10821010	0.95[JPT][hapmap]
rs10821012	0.95[JPT][hapmap]
rs10992413	0.95[JPT][hapmap]
rs10992430	0.95[JPT][hapmap]
rs10992431	0.95[JPT][hapmap]
rs10992432	0.95[JPT][hapmap]
rs10992434	0.95[JPT][hapmap]
rs10992436	0.95[JPT][hapmap]
rs10992439	0.91[CEU][hapmap]
rs10992442	0.95[JPT][hapmap]
rs10992443	0.95[JPT][hapmap]
rs10992444	0.95[JPT][hapmap]
rs10992445	0.95[JPT][hapmap]
rs10992448	0.83[JPT][hapmap]
rs10992451	0.95[JPT][hapmap]
rs10992453	0.82[JPT][hapmap]
rs10992460	0.83[JPT][hapmap]
rs10992461	0.83[JPT][hapmap]
rs10992469	0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10992472	0.89[ASN][1000 genomes]
rs1111047	0.84[CEU][hapmap]
rs1125063	0.95[JPT][hapmap]
rs1125064	0.95[JPT][hapmap]
rs12236393	0.95[JPT][hapmap]
rs12236516	0.95[JPT][hapmap]
rs12236754	0.82[JPT][hapmap]
rs12238691	0.83[JPT][hapmap]
rs12685080	0.86[JPT][hapmap]
rs12685257	0.95[JPT][hapmap]
rs12685780	0.95[JPT][hapmap]
rs12685791	0.95[JPT][hapmap]
rs1555574	0.94[ASN][1000 genomes]
rs1810696	0.94[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs2146719	0.89[ASN][1000 genomes]
rs2181521	0.89[ASN][1000 genomes]
rs2181584	0.83[JPT][hapmap]
rs2181586	0.95[JPT][hapmap]
rs2296080	0.95[JPT][hapmap]
rs3203916	0.95[JPT][hapmap]
rs3739605	0.83[JPT][hapmap]
rs556	0.95[JPT][hapmap]
rs6479427	0.81[CEU][hapmap]
rs6479429	0.92[CEU][hapmap]
rs7031163	0.83[JPT][hapmap]
rs7043114	0.81[CEU][hapmap]
rs753802	0.95[JPT][hapmap]
rs753803	0.95[JPT][hapmap]
rs7862106	0.95[JPT][hapmap]
rs7863741	0.82[ASN][1000 genomes]
rs7871537	0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7875225	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8181065	0.95[JPT][hapmap]
rs912260	0.88[CEU][hapmap]
rs912262	0.93[CEU][hapmap];0.82[MEX][hapmap]
rs976320	0.94[JPT][hapmap]
rs9886781	0.81[CEU][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	nsv430081	chr9:95502571-95568110	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv982595	chr9:95551536-95561640	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7868651	CENPP	cis	cerebellum	SCAN
rs7868651	CENPP	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95541400-95558600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:95553200-95556600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:95553600-95557400	Weak transcription	Liver	Liver
4	chr9:95555600-95557000	Enhancers	Primary neutrophils fromperipheralblood	blood

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