Variant report

Variant	rs569271276
Chromosome Location	chr3:119317961-119317962
allele	A/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	TBP	chr3:119316323-119317977	GM12878	blood:	n/a	n/a
2	RCOR1	chr3:119316992-119318319	GM12878	blood:	n/a	n/a
3	ESR1	chr3:119317842-119318216	T-47D	breast:	n/a	chr3:119318000-119318015
4	ESR1	chr3:119317732-119318209	T-47D	breast:	n/a	chr3:119318000-119318015
5	RELA	chr3:119316319-119318154	GM18505	blood:	n/a	n/a
6	POLR2A	chr3:119317249-119318242	GM12891	blood:	n/a	n/a
7	ESR1	chr3:119317765-119318111	ECC-1	luminal epithelium:	n/a	chr3:119318000-119318015
8	POLR2A	chr3:119315795-119320559	GM12878	blood:	n/a	n/a
9	RELA	chr3:119316639-119318712	GM12891	blood:	n/a	n/a
10	ESR1	chr3:119317743-119318124	T-47D	breast:	n/a	chr3:119318000-119318015
11	EBF1	chr3:119316230-119320348	GM12878	blood:	n/a	chr3:119317324-119317335
12	ESR1	chr3:119317748-119318167	T-47D	breast:	n/a	chr3:119318000-119318015
13	NRF1	chr3:119317566-119317961	GM12878	blood:	n/a	n/a
14	POLR2A	chr3:119316322-119320295	GM12891	blood:	n/a	n/a
15	STAT5A	chr3:119317078-119319327	GM12878	blood:	n/a	chr3:119318677-119318689 chr3:119319078-119319086
16	ATF2	chr3:119316171-119318970	GM12878	blood:	n/a	n/a
17	POLR2A	chr3:119317689-119317990	GM12878	blood:	n/a	n/a
18	NFIC	chr3:119315804-119319171	GM12878	blood:	n/a	n/a
19	POLR2A	chr3:119317245-119320053	GM12892	blood:	n/a	n/a
20	POLR2A	chr3:119316342-119320274	GM18951	blood:	n/a	n/a
21	RELA	chr3:119316328-119318748	GM18951	blood:	n/a	n/a
22	RELA	chr3:119316350-119318741	GM15510	blood:	n/a	n/a
23	PML	chr3:119314495-119320501	GM12878	blood:	n/a	n/a
24	STAT5A	chr3:119317184-119318032	GM12878	blood:	n/a	n/a
25	CEBPB	chr3:119316601-119318949	GM12878	blood:	n/a	chr3:119317085-119317098
26	POLR2A	chr3:119317212-119319940	GM12878	blood:	n/a	n/a
27	SMC3	chr3:119316523-119318090	GM12878	blood:	n/a	n/a
28	POLR2A	chr3:119317138-119320307	GM12892	blood:	n/a	n/a
29	RELA	chr3:119316289-119318031	GM12892	blood:	n/a	n/a
30	CHD2	chr3:119316648-119319935	GM12878	blood:	n/a	n/a
31	WRNIP1	chr3:119317226-119320130	GM12878	blood:	n/a	n/a
32	ELK1	chr3:119317765-119318056	GM12878	blood:	n/a	n/a
33	CHD1	chr3:119316263-119320189	GM12878	blood:	n/a	n/a
34	ESR1	chr3:119317744-119318167	ECC-1	luminal epithelium:	n/a	chr3:119318000-119318015
35	POLR2A	chr3:119317333-119320090	GM12878	blood:	n/a	n/a
36	ESR1	chr3:119317742-119318118	ECC-1	luminal epithelium:	n/a	chr3:119318000-119318015
37	BCLAF1	chr3:119316211-119318576	GM12878	blood:	n/a	chr3:119318543-119318552
38	RELA	chr3:119316313-119319077	GM19099	blood:	n/a	n/a
39	RUNX3	chr3:119315732-119318846	GM12878	blood:	n/a	chr3:119316012-119316021 chr3:119316012-119316021
40	MTA3	chr3:119317076-119319230	GM12878	blood:	n/a	n/a
41	POLR2A	chr3:119314772-119320568	GM12878	blood:	n/a	n/a
42	ESR1	chr3:119317714-119318130	ECC-1	luminal epithelium:	n/a	chr3:119318000-119318015
43	RUNX3	chr3:119316274-119318129	GM12878	blood:	n/a	n/a
44	CUX1	chr3:119316413-119318898	GM12878	blood:	n/a	n/a
45	POLR2A	chr3:119315907-119320520	GM12878	blood:	n/a	n/a
46	POLR2A	chr3:119316217-119320450	GM12878	blood:	n/a	n/a
47	MTA3	chr3:119315715-119320461	GM12878	blood:	n/a	n/a
48	FOXM1	chr3:119316121-119318989	GM12878	blood:	n/a	n/a
49	POLR2A	chr3:119317156-119320206	GM12892	blood:	n/a	n/a
50	POLR2A	chr3:119317181-119320325	GM12891	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:119297675..119300178-chr3:119317651..119319596,4	MCF-7	breast:

Variant related genes	Relation type
PLA1A	TF binding region
ENSG00000144843	Chromatin interaction
ENSG00000272967	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv829695	chr3:119178890-119367996	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv1831824	chr3:119263607-119402474	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv3963	chr3:119301064-119345904	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv591363	chr3:119316828-119345950	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119299800-119318000	Weak transcription	Fetal Heart	heart
2	chr3:119310600-119319800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:119314400-119318600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:119315000-119318000	Enhancers	Psoas Muscle	Psoas
5	chr3:119315000-119320200	Enhancers	Left Ventricle	heart
6	chr3:119315400-119319200	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr3:119315600-119319000	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr3:119315600-119319600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:119316000-119319200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr3:119316200-119318200	Enhancers	Fetal Kidney	kidney
11	chr3:119316200-119319400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr3:119316200-119319400	Weak transcription	Placenta	Placenta
13	chr3:119316200-119319600	Weak transcription	Spleen	Spleen
14	chr3:119316200-119340600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr3:119316400-119318200	Flanking Active TSS	Liver	Liver
16	chr3:119316400-119320600	Flanking Active TSS	GM12878-XiMat	blood
17	chr3:119316600-119320200	Enhancers	Right Ventricle	heart
18	chr3:119317000-119319000	Enhancers	Fetal Intestine Large	intestine
19	chr3:119317000-119319800	Weak transcription	Fetal Lung	lung
20	chr3:119317000-119319800	Weak transcription	HepG2	liver
21	chr3:119317000-119323800	Weak transcription	HSMMtube	muscle
22	chr3:119317200-119320200	Enhancers	Right Atrium	heart
23	chr3:119317200-119321200	Weak transcription	HUVEC	blood vessel
24	chr3:119317400-119318400	Enhancers	Ovary	ovary
25	chr3:119317400-119318400	Enhancers	Pancreas	Pancrea
26	chr3:119317400-119319600	Weak transcription	Primary B cells from peripheral blood	blood
27	chr3:119317400-119320200	Enhancers	Lung	lung
28	chr3:119317600-119320000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:119317600-119327800	Weak transcription	Fetal Intestine Small	intestine
30	chr3:119317800-119318000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:119317800-119318000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr3:119317800-119318000	Enhancers	Placenta Amnion	Placenta Amnion
33	chr3:119317800-119318400	Enhancers	Gastric	stomach
34	chr3:119317800-119318800	Weak transcription	Adipose Nuclei	Adipose
35	chr3:119317800-119319400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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