Variant report

Variant	rs3925947
Chromosome Location	chr10:5007162-5007163
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:64)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:64 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:5006933-5007521	K562	blood:	n/a	n/a
2	POLR2A	chr10:5006283-5008545	HepG2	liver:	n/a	n/a
3	ARID3A	chr10:5006965-5007239	K562	blood:	n/a	n/a
4	REST	chr10:5006932-5007576	A549	lung:	n/a	n/a
5	MBD4	chr10:5006298-5007562	HepG2	liver:	n/a	n/a
6	TEAD4	chr10:5006825-5007368	K562	blood:	n/a	n/a
7	ZBTB33	chr10:5006814-5007498	A549	lung:	n/a	n/a
8	POLR2A	chr10:5006917-5007689	HepG2	liver:	n/a	n/a
9	CEBPB	chr10:5006810-5007308	A549	lung:	n/a	n/a
10	POLR2A	chr10:5007060-5007752	A549	lung:	n/a	n/a
11	PML	chr10:5006814-5007365	K562	blood:	n/a	n/a
12	IRF1	chr10:5006984-5007267	K562	blood:	n/a	n/a
13	CEBPB	chr10:5006742-5007289	K562	blood:	n/a	n/a
14	MYC	chr10:5006963-5007228	K562	blood:	n/a	n/a
15	ATF1	chr10:5006965-5007264	K562	blood:	n/a	n/a
16	POLR2A	chr10:5007063-5008212	HepG2	liver:	n/a	n/a
17	RCOR1	chr10:5006938-5007309	K562	blood:	n/a	n/a
18	EP300	chr10:5006915-5007293	K562	blood:	n/a	chr10:5006923-5006936
19	GATA2	chr10:5006938-5007318	K562	blood:	n/a	n/a
20	HEY1	chr10:5005313-5008731	HepG2	liver:	n/a	n/a
21	POLR2A	chr10:5006946-5007290	K562	blood:	n/a	n/a
22	TAL1	chr10:5006879-5007328	K562	blood:	n/a	n/a
23	FOSL2	chr10:5006655-5007566	A549	lung:	n/a	n/a
24	JUND	chr10:5006937-5007356	K562	blood:	n/a	n/a
25	POLR2A	chr10:5006528-5008192	A549	lung:	n/a	n/a
26	POLR2A	chr10:5006972-5007587	HepG2	liver:	n/a	n/a
27	ZMIZ1	chr10:5006942-5007265	K562	blood:	n/a	n/a
28	JUN	chr10:5007058-5007279	K562	blood:	n/a	n/a
29	POLR2A	chr10:5007071-5007397	A549	lung:	n/a	n/a
30	POLR2A	chr10:5007102-5007222	A549	lung:	n/a	n/a
31	BCL3	chr10:5006044-5008338	A549	lung:	n/a	n/a
32	POLR2A	chr10:5005321-5012094	HepG2	liver:	n/a	n/a
33	GATA1	chr10:5006544-5007706	K562	blood:	n/a	n/a
34	TEAD4	chr10:5006774-5007424	K562	blood:	n/a	n/a
35	BCL3	chr10:5006889-5007578	A549	lung:	n/a	n/a
36	JUN	chr10:5006748-5007498	K562	blood:	n/a	n/a
37	JUN	chr10:5006946-5007300	K562	blood:	n/a	n/a
38	CEBPD	chr10:5006828-5007356	K562	blood:	n/a	n/a
39	HEY1	chr10:5006538-5007522	HepG2	liver:	n/a	n/a
40	POLR2A	chr10:5006947-5007309	K562	blood:	n/a	n/a
41	NR2F2	chr10:5006893-5007270	K562	blood:	n/a	n/a
42	POLR2A	chr10:5006471-5008272	HepG2	liver:	n/a	n/a
43	EP300	chr10:5006936-5007241	K562	blood:	n/a	n/a
44	GATA2	chr10:5006848-5007325	K562	blood:	n/a	n/a
45	POLR2A	chr10:5007050-5007421	A549	lung:	n/a	n/a
46	CEBPB	chr10:5006891-5007276	K562	blood:	n/a	n/a
47	MAX	chr10:5007106-5007286	HepG2	liver:	n/a	n/a
48	ATF3	chr10:5006942-5007285	K562	blood:	n/a	n/a
49	STAT5A	chr10:5006934-5007275	K562	blood:	n/a	n/a
50	POLR2A	chr10:5006930-5008241	HepG2	liver:	n/a	n/a

No data

Variant related genes	Relation type
ENSG00000238840	TF binding region
AKR1C1	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11252853	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11252862	0.81[ASN][1000 genomes]
rs12250633	0.81[ASN][1000 genomes]
rs12263706	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12264439	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12264914	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3890593	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3890643	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3898029	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3923936	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs41305661	0.88[ASN][1000 genomes]
rs4445550	0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4512733	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6601884	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6601887	0.81[ASN][1000 genomes]
rs6601888	0.81[ASN][1000 genomes]
rs68057779	0.85[ASN][1000 genomes]
rs7068923	0.81[ASN][1000 genomes]
rs7074155	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7076886	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7083234	1.00[YRI][hapmap]
rs7089378	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71230207	0.85[ASN][1000 genomes]
rs72769971	1.00[ASN][1000 genomes]
rs7893456	1.00[ASN][1000 genomes]
rs7906245	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7908994	1.00[ASN][1000 genomes]
rs7909151	0.81[ASN][1000 genomes]
rs7916500	0.82[YRI][hapmap]
rs7916644	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7922874	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894792	chr10:4832920-5498724	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv948794	chr10:4863093-5227382	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv1045155	chr10:4872239-5211318	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1040343	chr10:4872814-5196815	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540462	chr10:4872814-5196815	Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv869470	chr10:4878904-5203685	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv466713	chr10:4901798-5319679	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv549881	chr10:4901798-5319679	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
10	nsv1050246	chr10:4927428-5211318	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
11	nsv549882	chr10:4943518-5203864	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	esv2763913	chr10:4961021-5321407	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
13	nsv894794	chr10:4972761-5121745	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
14	nsv430122	chr10:4986040-5134511	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
15	nsv825221	chr10:4999349-5046239	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4998200-5023800	Weak transcription	Gastric	stomach
2	chr10:5004200-5008400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:5004800-5023800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr10:5005200-5007200	Active TSS	Stomach Smooth Muscle	stomach
5	chr10:5005200-5007400	Active TSS	Fetal Brain Female	brain
6	chr10:5005200-5008400	Active TSS	Liver	Liver
7	chr10:5005600-5007400	Active TSS	Brain Anterior Caudate	brain
8	chr10:5005600-5007800	Active TSS	Adipose Nuclei	Adipose
9	chr10:5005600-5008000	Active TSS	Psoas Muscle	Psoas
10	chr10:5005600-5008200	Active TSS	Duodenum Smooth Muscle	Duodenum
11	chr10:5005600-5009600	Active TSS	Right Atrium	heart
12	chr10:5005800-5009000	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr10:5005800-5011000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:5005800-5027400	Weak transcription	Fetal Stomach	stomach
15	chr10:5005800-5045800	Weak transcription	HSMMtube	muscle
16	chr10:5006000-5007200	Enhancers	Fetal Heart	heart
17	chr10:5006000-5023800	Weak transcription	Esophagus	oesophagus
18	chr10:5006000-5023800	Weak transcription	Left Ventricle	heart
19	chr10:5006000-5024000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr10:5006200-5007400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr10:5006200-5011000	Weak transcription	Ovary	ovary
22	chr10:5006200-5011200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr10:5006400-5007200	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr10:5006400-5007200	Bivalent/Poised TSS	HepG2	liver
25	chr10:5006600-5007200	Active TSS	Aorta	Aorta
26	chr10:5006600-5007200	Active TSS	Brain Cingulate Gyrus	brain
27	chr10:5006600-5007200	Enhancers	Fetal Intestine Large	intestine
28	chr10:5006600-5007400	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr10:5006600-5007400	Active TSS	Right Ventricle	heart
30	chr10:5006600-5007400	Transcr. at gene 5' and 3'	A549	lung
31	chr10:5006600-5007400	Flanking Active TSS	K562	blood
32	chr10:5006800-5007400	Flanking Active TSS	Brain Germinal Matrix	brain
33	chr10:5006800-5007400	Enhancers	Duodenum Mucosa	Duodenum
34	chr10:5006800-5010800	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr10:5006800-5011200	Weak transcription	Osteobl	bone
36	chr10:5007000-5007200	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr10:5007000-5007200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
38	chr10:5007000-5007200	Enhancers	Fetal Brain Male	brain
39	chr10:5007000-5007200	Enhancers	Fetal Intestine Small	intestine
40	chr10:5007000-5007400	Flanking Active TSS	NHDF-Ad	bronchial
41	chr10:5007000-5007400	Enhancers	NHEK	skin
42	chr10:5007000-5008000	Weak transcription	Stomach Mucosa	stomach

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