Variant report

Variant	rs538631097
Chromosome Location	chr2:53702695-53702696
allele	G/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	FOS	chr2:53702446-53702903	MCF10A-Er-Src	breast:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
2	RAD21	chr2:53702129-53702919	Hela-S3	cervix:	n/a	chr2:53702376-53702383
3	GATA3	chr2:53702310-53702828	MCF-7	breast:	n/a	n/a
4	SIN3AK20	chr2:53702196-53703060	HCT-116	colon:	n/a	n/a
5	RCOR1	chr2:53702158-53703301	Hela-S3	cervix:	n/a	n/a
6	STAT1	chr2:53702238-53703160	Hela-S3	cervix:	n/a	chr2:53702774-53702786 chr2:53702607-53702616 chr2:53702608-53702617
7	FOSL1	chr2:53702228-53703059	HCT-116	colon:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
8	TBP	chr2:53702263-53703221	Hela-S3	cervix:	n/a	n/a
9	PBX3	chr2:53702100-53702917	SK-N-SH	brain:	n/a	n/a
10	MAX	chr2:53702109-53703268	Hela-S3	cervix:	n/a	chr2:53702608-53702617 chr2:53702607-53702616 chr2:53702341-53702350
11	FOSL2	chr2:53702361-53702899	MCF-7	breast:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
12	NR2F2	chr2:53702331-53702818	MCF-7	breast:	n/a	n/a
13	POLR2A	chr2:53702572-53702897	Hela-S3	cervix:	n/a	n/a
14	GATA3	chr2:53702286-53702951	SK-N-SH	brain:	n/a	n/a
15	EP300	chr2:53702162-53703347	Hela-S3	cervix:	n/a	chr2:53702608-53702617 chr2:53702607-53702616 chr2:53702775-53702789
16	YY1	chr2:53702463-53702775	HCT-116	colon:	n/a	n/a
17	STAT3	chr2:53702357-53703004	MCF10A-Er-Src	breast:	n/a	chr2:53702774-53702786 chr2:53702607-53702616 chr2:53702608-53702617
18	NFYB	chr2:53702482-53702847	Hela-S3	cervix:	n/a	n/a
19	STAT3	chr2:53702420-53702869	MCF10A-Er-Src	breast:	n/a	chr2:53702774-53702786 chr2:53702607-53702616 chr2:53702608-53702617
20	CHD2	chr2:53702154-53703199	Hela-S3	cervix:	n/a	n/a
21	STAT3	chr2:53702139-53703244	Hela-S3	cervix:	n/a	chr2:53702774-53702786 chr2:53702607-53702616 chr2:53702608-53702617
22	EP300	chr2:53702066-53702938	SK-N-SH_RA	brain:	n/a	chr2:53702608-53702617 chr2:53702607-53702616 chr2:53702775-53702789
23	JUND	chr2:53702141-53703167	HCT-116	colon:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
24	TCF12	chr2:53702278-53702919	SK-N-SH	brain:	n/a	n/a
25	CEBPB	chr2:53702219-53703198	HCT-116	colon:	n/a	chr2:53703002-53703019
26	RFX5	chr2:53702114-53703158	Hela-S3	cervix:	n/a	n/a
27	RXRA	chr2:53702287-53702979	SK-N-SH	brain:	n/a	chr2:53702607-53702616 chr2:53702608-53702617
28	MAX	chr2:53702106-53703102	Hela-S3	cervix:	n/a	chr2:53702608-53702617 chr2:53702607-53702616 chr2:53702341-53702350
29	JUN	chr2:53702115-53703281	Hela-S3	cervix:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
30	POLR2A	chr2:53702458-53702899	HCT-116	colon:	n/a	n/a
31	POLR2A	chr2:53702323-53702917	Hela-S3	cervix:	n/a	n/a
32	TFAP2C	chr2:53702219-53702950	Hela-S3	cervix:	n/a	n/a
33	JUND	chr2:53702366-53702975	SK-N-SH	brain:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
34	CBX3	chr2:53702123-53703068	HCT-116	colon:	n/a	n/a
35	PBX3	chr2:53702109-53702919	SK-N-SH	brain:	n/a	n/a
36	SP1	chr2:53701976-53703101	HCT-116	colon:	n/a	n/a
37	EP300	chr2:53702404-53703033	SK-N-SH	brain:	n/a	chr2:53702608-53702617 chr2:53702607-53702616 chr2:53702775-53702789
38	JUND	chr2:53702072-53703331	Hela-S3	cervix:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
39	GATA3	chr2:53702401-53702871	SK-N-SH	brain:	n/a	n/a
40	TFAP2A	chr2:53702316-53703013	Hela-S3	cervix:	n/a	chr2:53702619-53702634
41	STAT3	chr2:53702671-53702916	MCF10A-Er-Src	breast:	n/a	chr2:53702774-53702786
42	FOSL1	chr2:53701991-53703162	HCT-116	colon:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
43	CBX3	chr2:53701938-53703325	HCT-116	colon:	n/a	n/a
44	STAT3	chr2:53702351-53702925	MCF10A-Er-Src	breast:	n/a	chr2:53702774-53702786 chr2:53702607-53702616 chr2:53702608-53702617
45	SIN3AK20	chr2:53702281-53702967	HCT-116	colon:	n/a	n/a
46	TAF1	chr2:53702582-53702895	Hela-S3	cervix:	n/a	n/a
47	USF2	chr2:53702142-53703172	Hela-S3	cervix:	n/a	n/a
48	JUND	chr2:53702170-53703064	HCT-116	colon:	n/a	chr2:53702608-53702616 chr2:53702609-53702616 chr2:53702737-53702745 chr2:53702608-53702617
49	MAX	chr2:53702235-53703052	HCT-116	colon:	n/a	chr2:53702608-53702617 chr2:53702607-53702616 chr2:53702341-53702350
50	E2F4	chr2:53702610-53703161	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:53691365..53693137-chr2:53701304..53703137,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251942	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002145	chr2:53387912-53832213	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv535718	chr2:53387912-53832213	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv997401	chr2:53515629-53863347	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv3383918	chr2:53585059-53710179	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1008648	chr2:53683543-53708531	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv457862	chr2:53687730-53706903	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv582008	chr2:53687730-53706903	Enhancers Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv999571	chr2:53690538-53775723	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv1012754	chr2:53690538-53785037	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv457873	chr2:53701324-53785037	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv582009	chr2:53701324-53785037	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:53698000-53706400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr2:53700000-53703000	Enhancers	Hela-S3	cervix
3	chr2:53700400-53704200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:53701200-53704000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr2:53702000-53703200	Enhancers	NHDF-Ad	bronchial
6	chr2:53702200-53703200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr2:53702200-53703200	Enhancers	A549	lung
8	chr2:53702200-53703200	Enhancers	NHLF	lung
9	chr2:53702200-53703400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr2:53702200-53703600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr2:53702200-53703600	Enhancers	NH-A	brain
12	chr2:53702200-53704000	Enhancers	HMEC	breast
13	chr2:53702200-53704200	Enhancers	NHEK	skin
14	chr2:53702400-53703200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr2:53702600-53703000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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