Variant report

Variant	rs58230571
Chromosome Location	chr4:166583524-166583525
allele	G/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	MAFF	chr4:166583338-166583682	HepG2	liver:	n/a	chr4:166583466-166583480 chr4:166583467-166583485
2	CEBPB	chr4:166583455-166583750	HepG2	liver:	n/a	n/a
3	MAFK	chr4:166583423-166583623	HepG2	liver:	n/a	chr4:166583473-166583484 chr4:166583466-166583480 chr4:166583473-166583484 chr4:166583471-166583485 chr4:166583463-166583483 chr4:166583472-166583483 chr4:166583468-166583484

Variant related genes	Relation type
ENSG00000250725	TF binding region

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10012405	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10029541	0.88[ASN][1000 genomes]
rs11931542	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11932029	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11938725	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1246905	0.80[ASN][1000 genomes]
rs1246910	0.80[ASN][1000 genomes]
rs1246920	0.80[ASN][1000 genomes]
rs12650088	0.86[ASN][1000 genomes]
rs1312880	0.80[ASN][1000 genomes]
rs1459507	0.90[ASN][1000 genomes]
rs17632084	0.92[EUR][1000 genomes]
rs17632233	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1960435	0.80[ASN][1000 genomes]
rs2611205	0.86[ASN][1000 genomes]
rs2611209	0.84[ASN][1000 genomes]
rs2611211	0.83[ASN][1000 genomes]
rs2611212	0.84[ASN][1000 genomes]
rs2611214	0.84[ASN][1000 genomes]
rs2611218	0.84[ASN][1000 genomes]
rs2611220	0.84[ASN][1000 genomes]
rs2714831	0.84[ASN][1000 genomes]
rs2714835	0.84[ASN][1000 genomes]
rs2714836	0.84[ASN][1000 genomes]
rs28455937	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28504666	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28602943	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4691212	0.99[ASN][1000 genomes]
rs55989211	0.87[EUR][1000 genomes]
rs56396842	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60551091	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61702512	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72631701	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72631702	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72635103	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72635104	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72635105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72635106	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72635107	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs736675	0.80[ASN][1000 genomes]
rs73863250	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73863253	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73863254	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7437622	0.84[ASN][1000 genomes]
rs764240	0.83[ASN][1000 genomes]
rs9308114	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9992610	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830141	chr4:166502908-166689626	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1028337	chr4:166544699-166659468	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv537338	chr4:166544699-166659468	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv3486584	chr4:166565013-166680227	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv3486585	chr4:166565013-166680227	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166570000-166584200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:166578400-166583600	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr4:166578600-166583600	Weak transcription	HepG2	liver
4	chr4:166579000-166583800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr4:166579600-166583800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr4:166583200-166583600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr4:166583400-166585400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links