Variant report

Variant	rs12244855
Chromosome Location	chr10:90967458-90967459
allele	A/C
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	chr10:90967060-90967850	ECC-1	luminal epithelium:	n/a	n/a
2	ZNF263	chr10:90966529-90968646	HEK293-T-REx	kidney:	n/a	n/a
3	E2F6	chr10:90967452-90968407	H1-hESC	embryonic stem cell:	n/a	chr10:90967985-90967997 chr10:90967914-90967928
4	USF1	chr10:90966988-90967475	SK-N-SH_RA	brain:	n/a	n/a
5	CEBPB	chr10:90967078-90967537	A549	lung:	n/a	n/a
6	BACH1	chr10:90966612-90967905	H1-hESC	embryonic stem cell:	n/a	n/a
7	POLR2A	chr10:90966766-90967491	PFSK-1	brain:	n/a	n/a
8	CTCF	chr10:90967440-90967590	SK-N-SH_RA	brain:	n/a	n/a
9	CEBPB	chr10:90967011-90967556	IMR90	lung:	n/a	n/a
10	ATF2	chr10:90967074-90967622	H1-hESC	embryonic stem cell:	n/a	n/a
11	STAT3	chr10:90967026-90967537	MCF10A-Er-Src	breast:	n/a	n/a
12	POLR2A	chr10:90966703-90967515	U87	brain:	n/a	n/a
13	MAX	chr10:90966226-90967526	H1-hESC	embryonic stem cell:	n/a	n/a
14	SUZ12	chr10:90966287-90967907	H1-hESC	embryonic stem cell:	n/a	n/a
15	USF2	chr10:90967319-90967568	HepG2	liver:	n/a	n/a
16	MAZ	chr10:90966597-90967921	IMR90	lung:	n/a	n/a
17	JUND	chr10:90967128-90967671	H1-hESC	embryonic stem cell:	n/a	n/a
18	MYC	chr10:90967176-90967557	MCF10A-Er-Src	breast:	n/a	n/a
19	MYC	chr10:90967127-90967494	MCF10A-Er-Src	breast:	n/a	n/a
20	RUNX3	chr10:90967343-90967725	GM12878	blood:	n/a	n/a
21	MAX	chr10:90966955-90967849	SK-N-SH	brain:	n/a	n/a
22	KAP1	chr10:90967073-90967603	HEK293	kidney:	n/a	n/a
23	POLR2A	chr10:90967070-90968096	H1-neurons	neurons:	n/a	n/a
24	MAFK	chr10:90967369-90967661	IMR90	lung:	n/a	n/a
25	POLR2A	chr10:90966697-90967515	U87	brain:	n/a	n/a
26	MAX	chr10:90966269-90967653	H1-hESC	embryonic stem cell:	n/a	n/a
27	POLR2A	chr10:90966724-90968174	H1-neurons	neurons:	n/a	n/a
28	CEBPB	chr10:90967242-90967532	HepG2	liver:	n/a	n/a
29	MAX	chr10:90966153-90967546	H1-hESC	embryonic stem cell:	n/a	n/a
30	SIN3A	chr10:90966852-90968132	H1-hESC	embryonic stem cell:	n/a	chr10:90967717-90967726 chr10:90967710-90967723
31	WRNIP1	chr10:90967263-90967462	GM12878	blood:	n/a	n/a
32	RUNX3	chr10:90967319-90967810	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
CH25H	TF binding region

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11203016	0.87[AFR][1000 genomes]
rs11203036	0.87[AFR][1000 genomes]
rs12247047	0.87[AFR][1000 genomes]
rs12253799	0.87[AFR][1000 genomes]
rs12260768	0.87[AFR][1000 genomes]
rs12265079	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	esv2758235	chr10:90835064-91017486	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv2759775	chr10:90835064-91017486	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
6	nsv517170	chr10:90931602-90975207	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv437127	chr10:90940003-90968103	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv467422	chr10:90940687-90975207	Strong transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv467423	chr10:90940687-90975207	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv551858	chr10:90940687-90975207	Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1038123	chr10:90954417-90992129	Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv1040280	chr10:90962032-90979093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1042428	chr10:90962252-90977164	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90965600-90968400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
2	chr10:90966000-90968400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:90966200-90967600	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
4	chr10:90966200-90967600	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
5	chr10:90966200-90968000	Active TSS	Brain Angular Gyrus	brain
6	chr10:90966200-90968200	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr10:90966200-90968200	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
8	chr10:90966200-90968200	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
9	chr10:90966200-90968200	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
10	chr10:90966200-90968200	Bivalent/Poised TSS	A549	lung
11	chr10:90966200-90968400	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
12	chr10:90966200-90968400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells short term culture	blood
13	chr10:90966200-90968400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr10:90966200-90968400	Flanking Active TSS	Adipose Nuclei	Adipose
15	chr10:90966200-90968400	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
16	chr10:90966200-90968600	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
17	chr10:90966400-90967600	Active TSS	Aorta	Aorta
18	chr10:90966400-90967600	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
19	chr10:90966400-90967600	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
20	chr10:90966400-90967600	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
21	chr10:90966400-90968000	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr10:90966400-90968000	Active TSS	Ovary	ovary
23	chr10:90966400-90968200	Flanking Bivalent TSS/Enh	Primary B cells from peripheral blood	blood
24	chr10:90966400-90968200	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
25	chr10:90966400-90968200	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
26	chr10:90966400-90968200	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
27	chr10:90966400-90968200	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
28	chr10:90966400-90968200	Flanking Bivalent TSS/Enh	GM12878-XiMat	blood
29	chr10:90966400-90968400	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
30	chr10:90966400-90968400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells	blood
31	chr10:90966400-90968400	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
32	chr10:90966400-90968400	Flanking Bivalent TSS/Enh	Primary T killer naive cells fromperipheralblood	blood
33	chr10:90966400-90968400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr10:90966400-90968400	Flanking Bivalent TSS/Enh	Fetal Lung	lung
35	chr10:90966600-90967600	Flanking Bivalent TSS/Enh	HepG2	liver
36	chr10:90966600-90968000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr10:90966600-90968000	Bivalent/Poised TSS	Primary T killer memory cells from peripheral blood	blood
38	chr10:90966600-90968000	Active TSS	Esophagus	oesophagus
39	chr10:90966600-90968200	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
40	chr10:90966600-90968200	Flanking Bivalent TSS/Enh	Primary Natural Killer cells fromperipheralblood	blood
41	chr10:90966600-90968200	Bivalent/Poised TSS	Fetal Kidney	kidney
42	chr10:90966800-90967600	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr10:90966800-90967800	Active TSS	HSMMtube	muscle
44	chr10:90966800-90968000	Active TSS	Breast Myoepithelial Primary Cells	Breast
45	chr10:90966800-90968000	Active TSS	Brain Hippocampus Middle	brain
46	chr10:90966800-90968000	Active TSS	Right Ventricle	heart
47	chr10:90966800-90968000	Active TSS	NHDF-Ad	bronchial
48	chr10:90966800-90968200	Bivalent/Poised TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr10:90966800-90968200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr10:90966800-90968200	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links