Variant report

Variant	rs11854277
Chromosome Location	chr15:78236650-78236651
allele	C/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	NFIC	chr15:78236641-78237276	GM12878	blood:	n/a	n/a
2	PAX5	chr15:78236633-78237289	GM12878	blood:	n/a	n/a
3	POLR2A	chr15:78236643-78237049	MCF-7	breast:	n/a	n/a
4	SIN3A	chr15:78236570-78236994	H1-hESC	embryonic stem cell:	n/a	n/a
5	MAZ	chr15:78236645-78237172	K562	blood:	n/a	chr15:78236998-78237008 chr15:78236656-78236666
6	POLR2A	chr15:78236568-78237133	HepG2	liver:	n/a	n/a
7	CTCF	chr15:78236540-78236690	HCPEpiC	choroid plexus:	n/a	n/a
8	POLR2A	chr15:78236635-78237322	PANC-1	pancreas:	n/a	n/a
9	FOXA1	chr15:78236615-78237108	HepG2	liver:	n/a	n/a
10	RXRA	chr15:78236646-78237206	HepG2	liver:	n/a	n/a
11	MYBL2	chr15:78236625-78237197	HepG2	liver:	n/a	n/a
12	SP1	chr15:78236626-78237256	HepG2	liver:	n/a	chr15:78236998-78237007 chr15:78236997-78237009 chr15:78236734-78236746 chr15:78236651-78236665 chr15:78236997-78237009 chr15:78236736-78236745 chr15:78236998-78237008 chr15:78236735-78236744 chr15:78236734-78236746 chr15:78236994-78237008 chr15:78236999-78237008
13	FOXA2	chr15:78236646-78236906	HepG2	liver:	n/a	n/a
14	POLR2A	chr15:78236532-78237211	HepG2	liver:	n/a	n/a
15	MAX	chr15:78236525-78237039	HepG2	liver:	n/a	chr15:78236998-78237008 chr15:78236656-78236666
16	POLR2A	chr15:78236487-78237313	SK-N-MC	brain:	n/a	n/a
17	TAF1	chr15:78236501-78237269	H1-hESC	embryonic stem cell:	n/a	n/a
18	TAF1	chr15:78236568-78237160	HepG2	liver:	n/a	n/a
19	YY1	chr15:78236595-78237136	HepG2	liver:	n/a	n/a
20	GABPA	chr15:78236618-78237211	K562	blood:	n/a	n/a
21	POLR2A	chr15:78236572-78237327	GM12878	blood:	n/a	n/a
22	POLR2A	chr15:78236544-78237236	HepG2	liver:	n/a	n/a
23	POLR2A	chr15:78236594-78237312	HUVEC	blood vessel:	n/a	n/a
24	EP300	chr15:78236598-78237073	HepG2	liver:	n/a	chr15:78236702-78236718 chr15:78236647-78236663
25	POLR2A	chr15:78236637-78237299	PANC-1	pancreas:	n/a	n/a
26	ZBTB7A	chr15:78236554-78236687	K562	blood:	n/a	n/a
27	POLR2A	chr15:78236343-78237293	NB4	blood:	n/a	n/a
28	GABPA	chr15:78236641-78237158	MCF-7	breast:	n/a	n/a
29	MAX	chr15:78236600-78237104	K562	blood:	n/a	chr15:78236998-78237008 chr15:78236656-78236666
30	ELF1	chr15:78236500-78237137	GM12878	blood:	n/a	n/a
31	POLR2A	chr15:78236008-78237423	H1-hESC	embryonic stem cell:	n/a	n/a
32	ELF1	chr15:78236650-78237118	K562	blood:	n/a	n/a
33	POLR2A	chr15:78236586-78237293	HUVEC	blood vessel:	n/a	n/a
34	POLR2A	chr15:78235646-78237325	HepG2	liver:	n/a	n/a
35	CBX3	chr15:78236567-78237287	K562	blood:	n/a	n/a
36	POLR2A	chr15:78236260-78237427	SK-N-MC	brain:	n/a	n/a
37	HEY1	chr15:78236443-78237251	HepG2	liver:	n/a	n/a
38	POLR2A	chr15:78236618-78237304	GM12892	blood:	n/a	n/a
39	POLR2A	chr15:78236327-78237323	K562	blood:	n/a	n/a
40	POLR2A	chr15:78236223-78237230	HepG2	liver:	n/a	n/a
41	POLR2A	chr15:78236616-78237282	GM12891	blood:	n/a	n/a
42	UBTF	chr15:78236411-78237088	K562	blood:	n/a	n/a
43	POLR2A	chr15:78235991-78237158	HepG2	liver:	n/a	n/a
44	POLR2A	chr15:78236625-78237101	H1-hESC	embryonic stem cell:	n/a	n/a
45	ELF1	chr15:78236646-78237122	HepG2	liver:	n/a	n/a
46	POLR2A	chr15:78236636-78237332	PFSK-1	brain:	n/a	n/a
47	MYC	chr15:78236523-78237109	K562	blood:	n/a	chr15:78236998-78237008 chr15:78236656-78236666
48	MAZ	chr15:78236342-78237226	IMR90	lung:	n/a	chr15:78236998-78237008 chr15:78236656-78236666
49	HNF4A	chr15:78236645-78237039	HepG2	liver:	n/a	chr15:78236945-78236961 chr15:78236766-78236774
50	MYBL2	chr15:78236638-78237218	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:78232364..78235120-chr15:78235300..78238762,3	K562	blood:

Variant related genes	Relation type
ENSG00000214646	TF binding region
ENSG00000214646	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11852882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11853677	1.00[AMR][1000 genomes]
rs11858739	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28696266	1.00[AMR][1000 genomes]
rs56875053	1.00[AMR][1000 genomes]
rs57128446	1.00[AMR][1000 genomes]
rs57309564	1.00[AMR][1000 genomes]
rs57442101	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58400094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58710415	1.00[AMR][1000 genomes]
rs60777884	1.00[AMR][1000 genomes]
rs60880256	1.00[AMR][1000 genomes]
rs61085022	1.00[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	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
3	esv1833316	chr15:78081307-78328108	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv904426	chr15:78090630-78264164	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription 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	11 gene(s)	inside rSNPs	diseases
5	nsv904427	chr15:78129964-78251431	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv976954	chr15:78153346-78255825	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv904429	chr15:78160362-78251431	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78233000-78236800	Weak transcription	Esophagus	oesophagus
2	chr15:78236200-78236800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:78236200-78236800	Flanking Active TSS	Fetal Muscle Leg	muscle
4	chr15:78236200-78237000	Active TSS	Monocytes-CD14+_RO01746	blood
5	chr15:78236200-78237200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr15:78236200-78237200	Active TSS	Liver	Liver
7	chr15:78236200-78237400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr15:78236200-78237400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:78236200-78237400	Active TSS	Brain Angular Gyrus	brain
10	chr15:78236200-78237400	Active TSS	Brain Cingulate Gyrus	brain
11	chr15:78236200-78237400	Active TSS	Duodenum Smooth Muscle	Duodenum
12	chr15:78236200-78237400	Active TSS	Rectal Smooth Muscle	rectum
13	chr15:78236200-78237400	Active TSS	Skeletal Muscle Female	skeletal muscle
14	chr15:78236200-78237400	Active TSS	NHDF-Ad	bronchial
15	chr15:78236200-78237600	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr15:78236200-78237600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr15:78236200-78237600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr15:78236200-78237800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:78236400-78236800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
20	chr15:78236400-78236800	Flanking Active TSS	H1 Cell Line	embryonic stem cell
21	chr15:78236400-78236800	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
22	chr15:78236400-78236800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr15:78236400-78236800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr15:78236400-78236800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
25	chr15:78236400-78236800	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr15:78236400-78236800	Active TSS	Muscle Satellite Cultured Cells	--
27	chr15:78236400-78236800	Enhancers	Fetal Lung	lung
28	chr15:78236400-78236800	Flanking Active TSS	Fetal Muscle Trunk	muscle
29	chr15:78236400-78236800	Enhancers	NH-A	brain
30	chr15:78236400-78237000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr15:78236400-78237000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr15:78236400-78237000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr15:78236400-78237000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr15:78236400-78237000	Enhancers	Fetal Brain Male	brain
35	chr15:78236400-78237000	Active TSS	NHEK	skin
36	chr15:78236400-78237200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr15:78236400-78237200	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
38	chr15:78236400-78237200	Active TSS	Brain Anterior Caudate	brain
39	chr15:78236400-78237200	Active TSS	Brain Inferior Temporal Lobe	brain
40	chr15:78236400-78237200	Active TSS	Colonic Mucosa	Colon
41	chr15:78236400-78237200	Active TSS	Colon Smooth Muscle	Colon
42	chr15:78236400-78237200	Active TSS	Pancreas	Pancrea
43	chr15:78236400-78237200	Active TSS	Rectal Mucosa Donor 29	rectum
44	chr15:78236400-78237200	Active TSS	HSMMtube	muscle
45	chr15:78236400-78237200	Active TSS	Osteobl	bone
46	chr15:78236400-78237400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr15:78236400-78237400	Flanking Active TSS	Primary B cells from peripheral blood	blood
48	chr15:78236400-78237400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
49	chr15:78236400-78237400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr15:78236400-78237400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links