Variant report

Variant	rs17689277
Chromosome Location	chr15:42304558-42304559
allele	C/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	CEBPB	chr15:42304520-42304687	HepG2	liver:	n/a	chr15:42304627-42304638
2	CEBPB	chr15:42304420-42304802	HepG2	liver:	n/a	chr15:42304627-42304638
3	STAT3	chr15:42304515-42304715	MCF10A-Er-Src	breast:	n/a	n/a
4	CEBPB	chr15:42304404-42304735	HepG2	liver:	n/a	chr15:42304627-42304638
5	STAT3	chr15:42304524-42304718	MCF10A-Er-Src	breast:	n/a	n/a
6	STAT3	chr15:42304517-42304618	MCF10A-Er-Src	breast:	n/a	n/a
7	ELF1	chr15:42304375-42304723	HepG2	liver:	n/a	chr15:42304529-42304540
8	ELF1	chr15:42304416-42304673	HepG2	liver:	n/a	chr15:42304529-42304540
9	MYC	chr15:42304514-42304833	MCF10A-Er-Src	breast:	n/a	n/a
10	FOS	chr15:42304502-42304634	MCF10A-Er-Src	breast:	n/a	n/a
11	ZEB1	chr15:42304275-42304892	HepG2	liver:	n/a	chr15:42304578-42304589
12	MYC	chr15:42304430-42304809	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
PLA2G4E	TF binding region

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17739998	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7182446	0.82[AMR][1000 genomes]
rs7182552	0.82[AMR][1000 genomes]
rs7183634	0.82[AMR][1000 genomes]
rs72726081	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1035998	chr15:42098896-42434254	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
3	nsv1038933	chr15:42138456-42309087	Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
4	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
5	nsv1054728	chr15:42177772-42310009	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
7	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42290400-42310400	Weak transcription	Right Atrium	heart
2	chr15:42301800-42306000	Enhancers	Fetal Intestine Small	intestine
3	chr15:42302000-42304600	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr15:42302000-42305400	Enhancers	Placenta	Placenta
5	chr15:42302000-42306000	Enhancers	Fetal Intestine Large	intestine
6	chr15:42302200-42304600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:42302600-42304600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr15:42303600-42304600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr15:42303600-42304800	Enhancers	GM12878-XiMat	blood
10	chr15:42303600-42305000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr15:42303600-42309000	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr15:42303800-42305400	Weak transcription	Lung	lung
13	chr15:42304000-42305000	Enhancers	Duodenum Mucosa	Duodenum
14	chr15:42304000-42305000	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr15:42304000-42305400	Enhancers	Pancreas	Pancrea
16	chr15:42304000-42305600	Enhancers	Stomach Mucosa	stomach
17	chr15:42304200-42304800	Enhancers	Sigmoid Colon	Sigmoid Colon
18	chr15:42304200-42305000	Enhancers	Colonic Mucosa	Colon
19	chr15:42304200-42305400	Enhancers	Esophagus	oesophagus
20	chr15:42304200-42305400	Enhancers	Rectal Mucosa Donor 29	rectum
21	chr15:42304400-42305200	Enhancers	HepG2	liver
22	chr15:42304400-42305600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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