Variant report

Variant	rs55745020
Chromosome Location	chr1:156341815-156341816
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	HDAC2	chr1:156341316-156342211	HepG2	liver:	n/a	n/a
2	MYBL2	chr1:156341149-156342364	HepG2	liver:	n/a	n/a
3	MAFK	chr1:156341612-156341983	HepG2	liver:	n/a	chr1:156341898-156341913
4	JUND	chr1:156341644-156342149	HepG2	liver:	n/a	chr1:156341770-156341779 chr1:156342032-156342043
5	CEBPB	chr1:156341219-156341828	A549	lung:	n/a	n/a
6	SP1	chr1:156341734-156341910	HepG2	liver:	n/a	chr1:156341845-156341859
7	USF1	chr1:156341788-156342246	SK-N-SH	brain:	n/a	n/a
8	CEBPB	chr1:156341390-156341828	MCF-7	breast:	n/a	n/a
9	HNF4A	chr1:156341248-156342128	HepG2	liver:	n/a	chr1:156341844-156341866 chr1:156341877-156341892
10	POLR2A	chr1:156341255-156342168	HepG2	liver:	n/a	n/a
11	MYBL2	chr1:156341132-156342198	HepG2	liver:	n/a	n/a
12	POLR2A	chr1:156341220-156342200	HepG2	liver:	n/a	n/a
13	MAFF	chr1:156341710-156341995	HepG2	liver:	n/a	n/a
14	MXI1	chr1:156341367-156342171	HepG2	liver:	n/a	n/a
15	MYC	chr1:156341777-156342027	HepG2	liver:	n/a	n/a
16	NR2F2	chr1:156341163-156342294	HepG2	liver:	n/a	n/a
17	TCF12	chr1:156341331-156342120	HepG2	liver:	n/a	n/a
18	POLR2A	chr1:156341147-156344127	HepG2	liver:	n/a	n/a
19	MBD4	chr1:156341243-156342293	HepG2	liver:	n/a	n/a
20	CEBPB	chr1:156341324-156342094	HepG2	liver:	n/a	n/a
21	USF1	chr1:156341803-156342216	SK-N-SH	brain:	n/a	n/a
22	TCF7L2	chr1:156341270-156342291	HepG2	liver:	n/a	chr1:156341893-156341907 chr1:156341895-156341904
23	USF1	chr1:156341737-156342344	HCT-116	colon:	n/a	n/a
24	POLR2A	chr1:156341735-156342167	HepG2	liver:	n/a	n/a
25	POLR2A	chr1:156336907-156344214	HepG2	liver:	n/a	n/a
26	SMC3	chr1:156341438-156342109	HepG2	liver:	n/a	n/a
27	HNF4G	chr1:156341177-156342258	HepG2	liver:	n/a	chr1:156341844-156341866 chr1:156342221-156342229
28	MAX	chr1:156341197-156342332	HepG2	liver:	n/a	chr1:156341772-156341782
29	EP300	chr1:156341355-156342166	HepG2	liver:	n/a	n/a
30	TBP	chr1:156341786-156342045	HepG2	liver:	n/a	n/a
31	FOXA1	chr1:156341400-156342198	HepG2	liver:	n/a	n/a
32	JUN	chr1:156341499-156342209	HepG2	liver:	n/a	chr1:156341770-156341779 chr1:156342162-156342171
33	JUND	chr1:156341333-156342232	HepG2	liver:	n/a	chr1:156341770-156341779 chr1:156342032-156342043 chr1:156342162-156342171
34	RFX5	chr1:156341405-156342177	HepG2	liver:	n/a	n/a
35	RAD21	chr1:156341784-156342093	HepG2	liver:	n/a	chr1:156341858-156341872
36	USF1	chr1:156341765-156342217	H1-hESC	embryonic stem cell:	n/a	n/a
37	ARID3A	chr1:156341385-156342160	HepG2	liver:	n/a	n/a
38	FOSL2	chr1:156341310-156342204	HepG2	liver:	n/a	chr1:156341770-156341779 chr1:156342162-156342171
39	USF2	chr1:156341808-156342225	HepG2	liver:	n/a	chr1:156342046-156342057
40	HNF4A	chr1:156341321-156342189	HepG2	liver:	n/a	chr1:156341844-156341866 chr1:156341877-156341892
41	CHD2	chr1:156341632-156342069	HepG2	liver:	n/a	chr1:156341774-156341784
42	USF1	chr1:156341677-156342293	HCT-116	colon:	n/a	n/a
43	SP1	chr1:156341210-156342206	HepG2	liver:	n/a	chr1:156341845-156341859
44	HEY1	chr1:156341169-156342527	HepG2	liver:	n/a	n/a
45	YY1	chr1:156341650-156342129	HepG2	liver:	n/a	n/a
46	JUND	chr1:156341698-156342142	HepG2	liver:	n/a	chr1:156341770-156341779 chr1:156342032-156342043
47	EP300	chr1:156341242-156342192	HepG2	liver:	n/a	n/a
48	FOXA1	chr1:156341491-156342249	HepG2	liver:	n/a	n/a
49	TEAD4	chr1:156341073-156342161	HepG2	liver:	n/a	n/a
50	HDAC2	chr1:156341208-156342164	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:156335306..156343282-chr1:156347773..156352892,8	MCF-7	breast:

Variant related genes	Relation type
CCT3	TF binding region
ENSG00000132677	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11585330	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11586833	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11587027	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3806410	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4641304	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4661039	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6690897	0.89[AMR][1000 genomes];0.96[EUR][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	nsv916198	chr1:155804210-156403997	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	428 gene(s)	inside rSNPs	diseases
2	nsv1011302	chr1:156081561-156532624	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	380 gene(s)	inside rSNPs	diseases
3	nsv915822	chr1:156226286-156651655	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	367 gene(s)	inside rSNPs	diseases
4	nsv872471	chr1:156287360-156356480	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
5	nsv470742	chr1:156335111-156354367	Genic enhancers Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	esv1793632	chr1:156338992-156366178	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
7	nsv946358	chr1:156339735-156342442	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:156339600-156358000	Weak transcription	Right Atrium	heart
2	chr1:156339800-156342600	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr1:156339800-156342800	Weak transcription	Pancreas	Pancrea
4	chr1:156339800-156343800	Weak transcription	Right Ventricle	heart
5	chr1:156340000-156343000	Enhancers	Fetal Intestine Small	intestine
6	chr1:156340200-156344400	Enhancers	Ovary	ovary
7	chr1:156340400-156343000	Flanking Active TSS	HepG2	liver
8	chr1:156341000-156342200	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr1:156341000-156344200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr1:156341200-156342000	Enhancers	Fetal Lung	lung
11	chr1:156341200-156342200	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr1:156341200-156342200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr1:156341200-156342200	Enhancers	Adipose Nuclei	Adipose
14	chr1:156341200-156342400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr1:156341400-156342000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr1:156341400-156342000	Enhancers	A549	lung
17	chr1:156341400-156342400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr1:156341600-156342000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr1:156341600-156342000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr1:156341600-156342000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr1:156341600-156342000	Flanking Active TSS	Fetal Intestine Large	intestine
22	chr1:156341600-156342200	Enhancers	Brain Hippocampus Middle	brain
23	chr1:156341800-156342000	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr1:156341800-156342000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr1:156341800-156342000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr1:156341800-156342000	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
27	chr1:156341800-156342000	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr1:156341800-156342000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
29	chr1:156341800-156342000	Enhancers	Lung	lung
30	chr1:156341800-156342200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr1:156341800-156342200	Enhancers	Brain Anterior Caudate	brain
32	chr1:156341800-156342200	Enhancers	Brain Substantia Nigra	brain
33	chr1:156341800-156342200	Flanking Active TSS	Placenta	Placenta
34	chr1:156341800-156342200	Bivalent Enhancer	NHDF-Ad	bronchial
35	chr1:156341800-156342200	Enhancers	NHLF	lung
36	chr1:156341800-156342200	Bivalent Enhancer	Osteobl	bone
37	chr1:156341800-156342400	Enhancers	HSMMtube	muscle
38	chr1:156341800-156342400	Enhancers	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links