Variant report

Variant	rs9854689
Chromosome Location	chr3:81887714-81887715
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	SPI1	chr3:81887515-81888078	HL-60	blood:	n/a	n/a
2	EP300	chr3:81887714-81887914	GM12878	blood:	n/a	n/a
3	TBL1XR1	chr3:81887655-81887932	GM12878	blood:	n/a	n/a
4	SPI1	chr3:81887595-81888039	HL-60	blood:	n/a	n/a
5	SPI1	chr3:81887609-81887970	GM12891	blood:	n/a	n/a
6	SPI1	chr3:81887695-81887972	GM12878	blood:	n/a	n/a
7	NFIC	chr3:81887535-81888022	GM12878	blood:	n/a	n/a
8	BATF	chr3:81887680-81887900	GM12878	blood:	n/a	n/a
9	SPI1	chr3:81887630-81888015	GM12878	blood:	n/a	n/a
10	EP300	chr3:81887709-81887920	GM12878	blood:	n/a	n/a
11	SPI1	chr3:81887278-81888209	GM12878	blood:	n/a	n/a
12	BHLHE40	chr3:81887664-81888022	GM12878	blood:	n/a	n/a
13	SPI1	chr3:81887597-81888046	GM12891	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000242009	TF binding region

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11917955	1.00[CEU][hapmap];0.88[YRI][hapmap]
rs11918127	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs11922735	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11926683	1.00[EUR][1000 genomes]
rs13314509	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13315052	1.00[EUR][1000 genomes]
rs13320194	0.93[YRI][hapmap]
rs13323074	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13433893	1.00[CEU][hapmap];0.93[YRI][hapmap]
rs1524555	0.94[EUR][1000 genomes]
rs17019144	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs17019176	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs17019323	1.00[EUR][1000 genomes]
rs3772893	1.00[CEU][hapmap]
rs3772907	0.94[YRI][hapmap]
rs6769382	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771000	0.94[EUR][1000 genomes]
rs6774605	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs6790574	0.94[EUR][1000 genomes]
rs6805400	1.00[CEU][hapmap];0.94[YRI][hapmap];0.89[EUR][1000 genomes]
rs6807821	0.94[EUR][1000 genomes]
rs72908088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72908097	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73855803	0.85[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7616562	1.00[EUR][1000 genomes]
rs7624752	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7642141	1.00[CEU][hapmap];0.82[YRI][hapmap];0.94[EUR][1000 genomes]
rs9309878	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9810461	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9811220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9811796	1.00[CEU][hapmap]
rs9815895	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9823236	0.94[YRI][hapmap]
rs9823805	0.94[YRI][hapmap]
rs9846063	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9860516	1.00[EUR][1000 genomes]
rs9862555	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs9865604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9866781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9871455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs998205	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs998207	1.00[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	nsv949545	chr3:81523898-81893929	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv999992	chr3:81693662-82015969	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv536605	chr3:81693662-82015969	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:81885200-81889000	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr3:81885400-81889600	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr3:81885800-81888400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:81886400-81887800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:81886600-81889400	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr3:81886600-81891600	Enhancers	Dnd41	blood
7	chr3:81887200-81888000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:81887200-81888000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
9	chr3:81887400-81888200	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr3:81887400-81888400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr3:81887400-81888800	Enhancers	GM12878-XiMat	blood
12	chr3:81887600-81887800	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr3:81887600-81887800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr3:81887600-81888000	Enhancers	Primary B cells from cord blood	blood
15	chr3:81887600-81889400	Enhancers	iPS-18 Cell Line	embryonic stem cell

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