Variant report

Variant	rs2415139
Chromosome Location	chr15:72768810-72768811
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	CEBPB	chr15:72768650-72768896	IMR90	lung:	n/a	chr15:72768761-72768772
2	CEBPB	chr15:72768630-72768837	K562	blood:	n/a	chr15:72768761-72768772
3	CEBPB	chr15:72768584-72768875	H1-hESC	embryonic stem cell:	n/a	chr15:72768761-72768772
4	CEBPB	chr15:72768595-72768903	K562	blood:	n/a	chr15:72768761-72768772
5	CEBPB	chr15:72768561-72768897	K562	blood:	n/a	chr15:72768761-72768772
6	CEBPB	chr15:72768663-72768888	A549	lung:	n/a	chr15:72768761-72768772
7	CEBPB	chr15:72768668-72768877	HepG2	liver:	n/a	chr15:72768761-72768772
8	CEBPB	chr15:72768671-72768864	Hela-S3	cervix:	n/a	chr15:72768761-72768772

No.	Distal block	Cell Line	Cell type
1	chr15:72750881..72760234-chr15:72764528..72769120,23	MCF-7	breast:
2	chr15:72666558..72670735-chr15:72765041..72769475,12	MCF-7	breast:
3	chr15:72635873..72639008-chr15:72766396..72768888,3	MCF-7	breast:
4	chr15:72521977..72524663-chr15:72766747..72769820,3	MCF-7	breast:
5	chr15:72609440..72614186-chr15:72765313..72769259,6	MCF-7	breast:
6	chr15:72651340..72653865-chr15:72768318..72770025,2	MCF-7	breast:
7	chr15:72765939..72768920-chr17:57914780..57917464,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000261423	TF binding region
ENSG00000067225	Chromatin interaction
ENSG00000140488	Chromatin interaction
ENSG00000260729	Chromatin interaction
ENSG00000261187	Chromatin interaction
ENSG00000260339	Chromatin interaction
ENSG00000213614	Chromatin interaction
ENSG00000273025	Chromatin interaction
ENSG00000062716	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10518988	0.81[AMR][1000 genomes]
rs10744963	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10851858	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11072365	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1133316	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1160608	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11631125	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11637103	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11638897	0.83[AMR][1000 genomes]
rs11855682	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12439018	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12439127	0.83[AMR][1000 genomes]
rs12908610	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12910393	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12913503	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs1374092	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1562250	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1812842	0.84[AMR][1000 genomes]
rs2278694	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2415136	0.84[AMR][1000 genomes]
rs2415137	0.84[AMR][1000 genomes]
rs2415141	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4146285	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4776601	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4777512	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4777520	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6495011	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7167521	0.87[EUR][1000 genomes]
rs7174287	0.80[ASN][1000 genomes]
rs8038934	0.80[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	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
2	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
3	nsv534037	chr15:72659210-72964029	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer 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
4	nsv469704	chr15:72669374-72853927	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
5	nsv482685	chr15:72669374-72853927	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
6	nsv1050558	chr15:72739150-72860350	Weak transcription Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
7	nsv542427	chr15:72739150-72860350	Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72765400-72769000	Active TSS	HUES48 Cell Line	embryonic stem cell
2	chr15:72765400-72769200	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr15:72765600-72769200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr15:72765600-72769200	Active TSS	Right Ventricle	heart
5	chr15:72765800-72769000	Active TSS	iPS-15b Cell Line	embryonic stem cell
6	chr15:72765800-72769000	Active TSS	iPS-20b Cell Line	embryonic stem cell
7	chr15:72765800-72769000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr15:72765800-72769000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr15:72765800-72769000	Active TSS	Stomach Smooth Muscle	stomach
10	chr15:72765800-72769000	Active TSS	A549	lung
11	chr15:72765800-72769000	Active TSS	GM12878-XiMat	blood
12	chr15:72765800-72769200	Active TSS	Breast Myoepithelial Primary Cells	Breast
13	chr15:72766000-72769000	Active TSS	HUES64 Cell Line	embryonic stem cell
14	chr15:72766000-72769000	Active TSS	iPS-18 Cell Line	embryonic stem cell
15	chr15:72766000-72769000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr15:72766000-72769000	Active TSS	Muscle Satellite Cultured Cells	--
17	chr15:72766000-72769000	Active TSS	Thymus	Thymus
18	chr15:72766000-72769000	Active TSS	HSMMtube	muscle
19	chr15:72766000-72769000	Active TSS	NHLF	lung
20	chr15:72766000-72769200	Active TSS	Fetal Kidney	kidney
21	chr15:72766000-72769400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr15:72766000-72769600	Active TSS	Ovary	ovary
23	chr15:72766200-72769000	Active TSS	Osteobl	bone
24	chr15:72766400-72769000	Active TSS	HSMM	muscle
25	chr15:72766400-72769200	Active TSS	NH-A	brain
26	chr15:72767600-72769000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
27	chr15:72767600-72769000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
28	chr15:72767600-72769200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
29	chr15:72767600-72769600	Active TSS	Right Atrium	heart
30	chr15:72767600-72769800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr15:72767800-72769000	Flanking Active TSS	Adipose Nuclei	Adipose
32	chr15:72767800-72769200	Flanking Active TSS	Primary T cells from cord blood	blood
33	chr15:72767800-72769200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr15:72767800-72769200	Flanking Active TSS	Brain Anterior Caudate	brain
35	chr15:72767800-72769200	Flanking Active TSS	Dnd41	blood
36	chr15:72767800-72769600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
37	chr15:72768000-72769000	Flanking Active TSS	Primary hematopoietic stem cells	blood
38	chr15:72768000-72769000	Flanking Active TSS	Rectal Smooth Muscle	rectum
39	chr15:72768000-72769000	Flanking Active TSS	HUVEC	blood vessel
40	chr15:72768000-72769400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
41	chr15:72768000-72769400	Flanking Active TSS	Duodenum Mucosa	Duodenum
42	chr15:72768000-72770200	Weak transcription	Gastric	stomach
43	chr15:72768200-72769000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr15:72768200-72769200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
45	chr15:72768200-72769400	Enhancers	Primary B cells from peripheral blood	blood
46	chr15:72768200-72772800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr15:72768200-72775400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr15:72768400-72769000	Enhancers	Primary T cells fromperipheralblood	blood
49	chr15:72768400-72769000	Transcr. at gene 5' and 3'	Primary T helper naive cells fromperipheralblood	blood
50	chr15:72768400-72769000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links