Variant report

Variant	rs9332978
Chromosome Location	chr1:47407950-47407951
allele	A/G
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	FOXA1	chr1:47407793-47408135	HepG2	liver:	n/a	n/a
2	FOXA1	chr1:47407684-47408185	HepG2	liver:	n/a	n/a
3	CEBPB	chr1:47407765-47408138	HepG2	liver:	n/a	chr1:47407954-47407963 chr1:47407954-47407965
4	CEBPB	chr1:47407842-47408063	HepG2	liver:	n/a	chr1:47407954-47407963 chr1:47407954-47407965
5	HNF4A	chr1:47407765-47408111	HepG2	liver:	n/a	chr1:47407963-47407978 chr1:47407963-47407978 chr1:47407965-47407977 chr1:47407963-47407978 chr1:47407964-47407976 chr1:47407963-47407978 chr1:47407965-47407977 chr1:47407964-47407977 chr1:47407965-47407978
6	ARID3A	chr1:47407911-47408095	HepG2	liver:	n/a	n/a
7	FOXA2	chr1:47407816-47408028	HepG2	liver:	n/a	n/a
8	HNF4A	chr1:47407806-47408055	HepG2	liver:	n/a	chr1:47407963-47407978 chr1:47407963-47407978 chr1:47407965-47407977 chr1:47407963-47407978 chr1:47407964-47407976 chr1:47407963-47407978 chr1:47407965-47407977 chr1:47407964-47407977 chr1:47407965-47407978
9	FOXA1	chr1:47407756-47408143	HepG2	liver:	n/a	n/a
10	EP300	chr1:47407781-47408057	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
CYP4A11	TF binding region

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10789496	0.81[EUR][1000 genomes]
rs10890429	0.81[EUR][1000 genomes]
rs10890430	0.81[EUR][1000 genomes]
rs10890432	0.81[EUR][1000 genomes]
rs11211409	0.81[EUR][1000 genomes]
rs11211411	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11211412	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12022394	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][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];1.00[ASN][1000 genomes]
rs12027446	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12031766	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12041693	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12117798	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12126734	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12142787	1.00[ASW][hapmap];1.00[LWK][hapmap];0.91[TSI][hapmap]
rs1847228	0.81[EUR][1000 genomes]
rs2202222	1.00[LWK][hapmap]
rs2292060	1.00[LWK][hapmap]
rs2297813	0.91[TSI][hapmap]
rs3766209	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap]
rs6700978	0.84[EUR][1000 genomes]
rs9332981	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9332982	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9333016	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9333025	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9333030	0.80[AMR][1000 genomes]
rs9333031	0.95[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9333033	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv871958	chr1:47350374-47517123	Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1009338	chr1:47358532-47555253	Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2763300	chr1:47358532-47628774	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv870695	chr1:47363893-47502714	Bivalent/Poised TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv871288	chr1:47363893-47507808	Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv871377	chr1:47363893-47517123	Bivalent Enhancer ZNF genes & repeats Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv945928	chr1:47392738-47414613	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
8	nsv546166	chr1:47407739-47495605	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9332978	CYP4B1	cis	lung	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:47405800-47408000	Enhancers	Fetal Intestine Large	intestine
2	chr1:47405800-47408200	Active TSS	Liver	Liver
3	chr1:47406200-47408600	Enhancers	HepG2	liver
4	chr1:47406400-47408600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:47407400-47412400	Weak transcription	Stomach Mucosa	stomach
6	chr1:47407800-47412800	Weak transcription	Fetal Intestine Small	intestine
7	chr1:47407800-47414200	Weak transcription	Duodenum Mucosa	Duodenum

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