Variant report

Variant	rs9811220
Chromosome Location	chr3:81886432-81886433
allele	A/C
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	FOXA2	chr3:81886163-81886576	A549	lung:	n/a	n/a
2	E2F4	chr3:81886344-81886645	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr3:81886405-81886532	MCF10A-Er-Src	breast:	n/a	chr3:81886421-81886429 chr3:81886422-81886429 chr3:81886420-81886429 chr3:81886421-81886430
4	FOS	chr3:81886339-81886523	MCF10A-Er-Src	breast:	n/a	chr3:81886421-81886429 chr3:81886422-81886429 chr3:81886420-81886429 chr3:81886421-81886430
5	MAFK	chr3:81886366-81886537	HepG2	liver:	n/a	chr3:81886419-81886428 chr3:81886414-81886429 chr3:81886419-81886429
6	MAFK	chr3:81886296-81886578	HepG2	liver:	n/a	chr3:81886419-81886428 chr3:81886414-81886429 chr3:81886419-81886429
7	FOS	chr3:81886305-81886556	MCF10A-Er-Src	breast:	n/a	chr3:81886421-81886429 chr3:81886422-81886429 chr3:81886420-81886429 chr3:81886421-81886430
8	MAFF	chr3:81886318-81886545	HepG2	liver:	n/a	chr3:81886412-81886430

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:81885124..81886646-chr3:81889084..81891267,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000242009	TF binding region
ENSG00000242009	Chromatin interaction

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];0.90[YRI][hapmap]
rs11918127	1.00[CEU][hapmap];0.95[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	0.94[YRI][hapmap]
rs13323074	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13433893	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs1524555	0.94[EUR][1000 genomes]
rs17019144	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs17019176	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs17019323	1.00[EUR][1000 genomes]
rs3772893	1.00[CEU][hapmap]
rs3772907	0.95[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];0.95[YRI][hapmap]
rs6790574	0.94[EUR][1000 genomes]
rs6805400	1.00[CEU][hapmap];0.95[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];0.85[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]
rs9811796	1.00[CEU][hapmap]
rs9815895	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9823236	0.89[YRI][hapmap]
rs9823805	0.95[YRI][hapmap]
rs9846063	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854689	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]
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]
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];0.95[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:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:81883400-81886600	Weak transcription	Dnd41	blood
2	chr3:81885200-81889000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr3:81885400-81886600	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr3:81885400-81889600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:81885800-81888400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:81886000-81886800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:81886200-81887600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:81886400-81887000	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr3:81886400-81887800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links