Variant report

Variant	rs62294746
Chromosome Location	chr4:1076497-1076498
allele	C/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	TEAD4	chr4:1075825-1076593	ECC-1	luminal epithelium:	n/a	n/a
2	EP300	chr4:1075809-1076589	ECC-1	luminal epithelium:	n/a	n/a
3	NFIC	chr4:1075757-1076678	ECC-1	luminal epithelium:	n/a	n/a
4	FOSL2	chr4:1076064-1076611	A549	lung:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
5	FOS	chr4:1076051-1076524	MCF10A-Er-Src	breast:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
6	FOSL2	chr4:1076093-1076648	SK-N-SH	brain:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
7	FOS	chr4:1076051-1076580	MCF10A-Er-Src	breast:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
8	MXI1	chr4:1076069-1076534	Hela-S3	cervix:	n/a	n/a
9	ESR1	chr4:1075923-1076531	ECC-1	luminal epithelium:	n/a	n/a
10	MAX	chr4:1075154-1076585	Hela-S3	cervix:	n/a	n/a
11	MYC	chr4:1075142-1076498	MCF10A-Er-Src	breast:	n/a	n/a
12	GTF2F1	chr4:1076043-1076622	Hela-S3	cervix:	n/a	n/a
13	STAT3	chr4:1076049-1076502	MCF10A-Er-Src	breast:	n/a	n/a
14	FOSL2	chr4:1076170-1076498	A549	lung:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
15	NR3C1	chr4:1076017-1076531	A549	lung:	n/a	chr4:1076363-1076372 chr4:1076364-1076373
16	SIN3AK20	chr4:1076009-1076898	MCF-7	breast:	n/a	n/a
17	CEBPB	chr4:1075913-1076648	ECC-1	luminal epithelium:	n/a	chr4:1076328-1076339 chr4:1076330-1076339
18	TCF12	chr4:1075739-1076917	ECC-1	luminal epithelium:	n/a	n/a
19	CEBPB	chr4:1076041-1076597	HCT-116	colon:	n/a	chr4:1076328-1076339 chr4:1076330-1076339
20	CEBPB	chr4:1076041-1076690	MCF-7	breast:	n/a	chr4:1076328-1076339 chr4:1076330-1076339
21	POLR2A	chr4:1075962-1076579	ECC-1	luminal epithelium:	n/a	n/a
22	MAX	chr4:1075091-1076610	A549	lung:	n/a	n/a
23	TCF12	chr4:1075800-1076663	ECC-1	luminal epithelium:	n/a	n/a
24	CEBPB	chr4:1076010-1076589	ECC-1	luminal epithelium:	n/a	chr4:1076328-1076339 chr4:1076330-1076339
25	FOS	chr4:1076051-1076550	MCF10A-Er-Src	breast:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
26	TCF12	chr4:1075988-1076507	A549	lung:	n/a	n/a
27	POLR2A	chr4:1076043-1076504	U87	brain:	n/a	n/a
28	STAT3	chr4:1076045-1076530	MCF10A-Er-Src	breast:	n/a	n/a
29	BRCA1	chr4:1076070-1076508	Hela-S3	cervix:	n/a	n/a
30	ESR1	chr4:1075804-1076512	ECC-1	luminal epithelium:	n/a	n/a
31	CEBPB	chr4:1075995-1076616	A549	lung:	n/a	chr4:1076328-1076339 chr4:1076330-1076339
32	MAX	chr4:1075242-1076613	NB4	blood:	n/a	n/a
33	EP300	chr4:1075655-1076876	ECC-1	luminal epithelium:	n/a	n/a
34	ZKSCAN1	chr4:1076023-1076504	Hela-S3	cervix:	n/a	n/a
35	SMARCC1	chr4:1075961-1076733	Hela-S3	cervix:	n/a	chr4:1076364-1076373
36	SP1	chr4:1076051-1076498	A549	lung:	n/a	chr4:1076216-1076225 chr4:1076214-1076226 chr4:1076214-1076226 chr4:1076215-1076225 chr4:1076159-1076172
37	JUND	chr4:1076160-1076582	A549	lung:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
38	FOS	chr4:1076095-1076553	MCF10A-Er-Src	breast:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
39	FOXA1	chr4:1076400-1076688	HepG2	liver:	n/a	n/a
40	MAX	chr4:1075480-1076594	ECC-1	luminal epithelium:	n/a	n/a
41	CEBPB	chr4:1076129-1076535	IMR90	lung:	n/a	chr4:1076328-1076339 chr4:1076330-1076339
42	POLR2A	chr4:1076049-1076529	MCF10A-Er-Src	breast:	n/a	n/a
43	JUN	chr4:1076099-1076503	Hela-S3	cervix:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
44	POLR2A	chr4:1075978-1076611	Hela-S3	cervix:	n/a	n/a
45	SMARCB1	chr4:1076048-1076644	Hela-S3	cervix:	n/a	chr4:1076364-1076373
46	JUND	chr4:1076103-1076563	Hela-S3	cervix:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373
47	MAX	chr4:1076061-1076554	Hela-S3	cervix:	n/a	n/a
48	RFX5	chr4:1076098-1076508	Hela-S3	cervix:	n/a	chr4:1076288-1076296
49	EP300	chr4:1076004-1076513	Hela-S3	cervix:	n/a	n/a
50	FOSL2	chr4:1076085-1076576	MCF-7	breast:	n/a	chr4:1076363-1076373 chr4:1076364-1076372 chr4:1076363-1076373 chr4:1076363-1076373 chr4:1076363-1076373

No.	Distal block	Cell Line	Cell type
1	chr4:1076013..1078004-chr4:1078598..1081280,2	K562	blood:
2	chr4:1002810..1005297-chr4:1075374..1076893,2	K562	blood:
3	chr4:1075158..1077915-chr4:1242318..1244508,3	MCF-7	breast:
4	chr4:1066782..1068994-chr4:1074953..1077506,2	K562	blood:

Variant related genes	Relation type
RNF212	TF binding region
ENSG00000178222	Chromatin interaction
ENSG00000159692	Chromatin interaction
ENSG00000196810	Chromatin interaction
ENSG00000127418	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11947960	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56958378	0.93[AMR][1000 genomes]
rs62294688	0.93[AMR][1000 genomes]
rs62294689	0.93[AMR][1000 genomes]
rs62294717	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62294747	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs62294750	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs62294753	0.85[AFR][1000 genomes]
rs62294755	0.85[AFR][1000 genomes]
rs62296078	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv822425	chr4:540105-1413799	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
2	nsv530490	chr4:614355-1399150	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Genic enhancers 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 target site	104 gene(s)	inside rSNPs	diseases
3	nsv1003219	chr4:769894-1105464	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv469998	chr4:809593-1087531	Strong transcription Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv878277	chr4:813393-1087531	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv536980	chr4:827866-1167377	Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
7	nsv1009619	chr4:901897-1215657	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
8	nsv1003876	chr4:927509-1191316	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
9	nsv1000381	chr4:927509-1198766	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
10	nsv870410	chr4:927839-1090974	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
11	nsv878292	chr4:939883-1087531	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
12	esv1846290	chr4:941518-1081307	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
13	esv3339080	chr4:970630-1546223	Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
14	esv1842515	chr4:983060-1087531	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
15	nsv1004727	chr4:1015652-1158207	Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
16	nsv536984	chr4:1015652-1158207	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
17	nsv1005990	chr4:1015652-1167619	Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
18	nsv878327	chr4:1024752-1087531	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
19	nsv1000594	chr4:1045099-1129975	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
20	nsv1001165	chr4:1051512-1129975	Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:1074600-1076800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr4:1074800-1076600	Enhancers	A549	lung
3	chr4:1074800-1076800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:1075400-1076600	Enhancers	NHDF-Ad	bronchial
5	chr4:1075400-1076800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr4:1075400-1076800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr4:1075400-1076800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr4:1075400-1076800	Flanking Active TSS	Hela-S3	cervix
9	chr4:1075400-1077600	Enhancers	Pancreas	Pancrea
10	chr4:1075600-1076600	Enhancers	Gastric	stomach
11	chr4:1075600-1076600	Enhancers	Lung	lung
12	chr4:1075600-1076600	Enhancers	Spleen	Spleen
13	chr4:1075600-1076600	Enhancers	NH-A	brain
14	chr4:1075600-1076600	Flanking Active TSS	NHEK	skin
15	chr4:1075600-1076800	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr4:1075600-1076800	Enhancers	Adipose Nuclei	Adipose
17	chr4:1075600-1076800	Enhancers	Esophagus	oesophagus
18	chr4:1075600-1076800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr4:1075600-1077000	Enhancers	Primary B cells from peripheral blood	blood
20	chr4:1075800-1076600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
21	chr4:1075800-1076600	Enhancers	Colonic Mucosa	Colon
22	chr4:1075800-1077000	Enhancers	Stomach Mucosa	stomach
23	chr4:1076000-1076600	Enhancers	Primary B cells from cord blood	blood
24	chr4:1076000-1076600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr4:1076000-1076600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr4:1076000-1076600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr4:1076000-1076600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr4:1076000-1076600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr4:1076000-1076600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
30	chr4:1076000-1076600	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
31	chr4:1076000-1076600	Enhancers	NHLF	lung
32	chr4:1076000-1076800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr4:1076000-1076800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr4:1076000-1076800	Bivalent Enhancer	Placenta	Placenta
35	chr4:1076000-1076800	Flanking Active TSS	HSMM	muscle
36	chr4:1076200-1076600	Bivalent Enhancer	Fetal Muscle Leg	muscle
37	chr4:1076200-1076600	Enhancers	Left Ventricle	heart
38	chr4:1076200-1076600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
39	chr4:1076200-1076600	Bivalent Enhancer	HepG2	liver
40	chr4:1076200-1076800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr4:1076200-1076800	Enhancers	HSMMtube	muscle
42	chr4:1076400-1076600	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr4:1076400-1076600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr4:1076400-1076600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
45	chr4:1076400-1076600	Flanking Active TSS	Duodenum Mucosa	Duodenum
46	chr4:1076400-1076600	Flanking Active TSS	HMEC	breast
47	chr4:1076400-1076600	Flanking Active TSS	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links