Variant report

Variant	rs3759868
Chromosome Location	chr15:56757995-56757996
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	MAX	chr15:56756882-56758021	A549	lung:	n/a	n/a
2	MXI1	chr15:56756687-56758048	SK-N-SH	brain:	n/a	chr15:56757286-56757301
3	NFYB	chr15:56756878-56758000	GM12878	blood:	n/a	chr15:56757355-56757369
4	POLR2A	chr15:56756822-56758337	GM12891	blood:	n/a	n/a
5	E2F4	chr15:56757949-56758646	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
MNS1	TF binding region

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1087836	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1087838	1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11488881	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12050881	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12443042	0.85[CHB][hapmap];0.88[CHD][hapmap]
rs12591109	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12591303	0.85[CHB][hapmap];0.90[CHD][hapmap];0.90[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12594941	0.85[CHB][hapmap];0.90[CHD][hapmap];0.81[GIH][hapmap];1.00[TSI][hapmap]
rs1402173	0.85[CHB][hapmap]
rs16976847	0.85[CHB][hapmap]
rs16976919	0.90[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs2162216	0.85[CHB][hapmap]
rs4142479	0.80[EUR][1000 genomes]
rs58619937	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7177904	0.90[CHD][hapmap]
rs795784	0.82[EUR][1000 genomes]
rs8023554	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1545	chr15:56659498-56897381	Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1046891	chr15:56659587-56792033	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv471330	chr15:56659709-56896385	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv471506	chr15:56659709-56896385	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv498847	chr15:56667038-56896395	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv2525559	chr15:56669294-56897412	Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv433294	chr15:56676457-56853535	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	esv3693203	chr15:56676457-56894478	Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	esv35150	chr15:56677730-56896304	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv9270	chr15:56686946-56760420	Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	esv2757602	chr15:56736478-56790080	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	esv2760033	chr15:56736478-56790080	Bivalent/Poised TSS Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56756200-56758000	Active TSS	Fetal Kidney	kidney
2	chr15:56756400-56758000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr15:56756400-56758000	Active TSS	A549	lung
4	chr15:56756600-56758000	Active TSS	HUES6 Cell Line	embryonic stem cell
5	chr15:56756600-56758000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr15:56756600-56758000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:56756600-56758000	Active TSS	Duodenum Smooth Muscle	Duodenum
8	chr15:56756600-56758000	Active TSS	NHDF-Ad	bronchial
9	chr15:56756600-56758200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr15:56756800-56758000	Active TSS	Thymus	Thymus
11	chr15:56757000-56758000	Active TSS	H9 Cell Line	embryonic stem cell
12	chr15:56757000-56758400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr15:56757200-56758000	Active TSS	Primary T cells from cord blood	blood
14	chr15:56757400-56758000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr15:56757400-56758000	Flanking Active TSS	Dnd41	blood
16	chr15:56757400-56758000	Flanking Active TSS	HMEC	breast
17	chr15:56757400-56758000	Flanking Active TSS	HSMM	muscle
18	chr15:56757400-56758200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
19	chr15:56757600-56758000	Flanking Active TSS	Fetal Lung	lung
20	chr15:56757600-56760000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr15:56757600-56760400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr15:56757600-56760400	Weak transcription	Stomach Mucosa	stomach
23	chr15:56757600-56760600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr15:56757800-56758000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr15:56757800-56758000	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr15:56757800-56758000	Enhancers	Primary hematopoietic stem cells	blood
27	chr15:56757800-56758000	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr15:56757800-56758000	Active TSS	Adipose Nuclei	Adipose
29	chr15:56757800-56758000	Enhancers	Brain Cingulate Gyrus	brain
30	chr15:56757800-56758000	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr15:56757800-56758000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr15:56757800-56758000	Enhancers	Duodenum Mucosa	Duodenum
33	chr15:56757800-56758000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
34	chr15:56757800-56758000	Enhancers	Fetal Stomach	stomach
35	chr15:56757800-56758000	Enhancers	Ovary	ovary
36	chr15:56757800-56758000	Active TSS	Rectal Mucosa Donor 29	rectum
37	chr15:56757800-56758000	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr15:56757800-56758000	Active TSS	NHEK	skin
39	chr15:56757800-56758200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr15:56757800-56758200	Enhancers	Pancreatic Islets	Pancreatic Islet
41	chr15:56757800-56758400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr15:56757800-56758400	Enhancers	Esophagus	oesophagus
43	chr15:56757800-56758400	Active TSS	GM12878-XiMat	blood
44	chr15:56757800-56760200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr15:56757800-56760200	Weak transcription	Liver	Liver
46	chr15:56757800-56760200	Weak transcription	HepG2	liver
47	chr15:56757800-56760200	Weak transcription	NHLF	lung
48	chr15:56757800-56760400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr15:56757800-56760400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr15:56757800-56760400	Weak transcription	Primary monocytes fromperipheralblood	blood

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