Variant report

Variant	rs576063539
Chromosome Location	chr5:111755411-111755412
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	TCF7L2	chr5:111753600-111756377	Hela-S3	cervix:	n/a	n/a
2	SMARCB1	chr5:111754225-111756321	Hela-S3	cervix:	n/a	n/a
3	HA-E2F1	chr5:111754459-111756126	Hela-S3	cervix:	n/a	chr5:111755034-111755043 chr5:111755619-111755628
4	MAX	chr5:111754778-111756400	Hela-S3	cervix:	n/a	chr5:111755892-111755902
5	MXI1	chr5:111753384-111756601	SK-N-SH	brain:	n/a	n/a
6	POLR2A	chr5:111754454-111756283	MCF-7	breast:	n/a	n/a
7	TCF12	chr5:111754901-111756412	ECC-1	luminal epithelium:	n/a	chr5:111755437-111755447
8	MAX	chr5:111754942-111756475	A549	lung:	n/a	chr5:111755892-111755902
9	HMGN3	chr5:111755142-111756295	K562	blood:	n/a	n/a
10	POLR2A	chr5:111755341-111755734	MCF10A-Er-Src	breast:	n/a	n/a
11	ELF1	chr5:111755103-111755784	GM12878	blood:	n/a	chr5:111755575-111755584
12	SIN3AK20	chr5:111755254-111756179	H1-hESC	embryonic stem cell:	n/a	n/a
13	POLR2A	chr5:111754636-111755889	H1-neurons	neurons:	n/a	n/a
14	TEAD4	chr5:111755371-111756378	ECC-1	luminal epithelium:	n/a	n/a
15	POLR2A	chr5:111754624-111756320	ECC-1	luminal epithelium:	n/a	n/a
16	RAD21	chr5:111755316-111756648	SK-N-SH	brain:	n/a	chr5:111756142-111756152 chr5:111756138-111756157 chr5:111756012-111756021 chr5:111755842-111755855 chr5:111755882-111755892
17	POLR2A	chr5:111755411-111755957	MCF10A-Er-Src	breast:	n/a	n/a
18	REST	chr5:111754679-111756299	H1-neurons	neurons:	n/a	chr5:111755889-111755902 chr5:111755260-111755273 chr5:111755633-111755646
19	POLR2A	chr5:111754779-111756518	Hela-S3	cervix:	n/a	n/a
20	MAX	chr5:111755006-111756483	ECC-1	luminal epithelium:	n/a	chr5:111755892-111755902
21	POLR2A	chr5:111755231-111755741	Hela-S3	cervix:	n/a	n/a
22	CHD2	chr5:111754807-111756335	Hela-S3	cervix:	n/a	chr5:111755760-111755770 chr5:111755673-111755683
23	ZNF143	chr5:111754770-111756293	Hela-S3	cervix:	n/a	chr5:111755633-111755643 chr5:111755256-111755274 chr5:111755619-111755637
24	POLR2A	chr5:111755198-111755818	HUVEC	blood vessel:	n/a	n/a
25	POLR2A	chr5:111755328-111755561	A549	lung:	n/a	n/a
26	MAX	chr5:111754491-111756483	ECC-1	luminal epithelium:	n/a	chr5:111755892-111755902
27	BACH1	chr5:111755202-111756433	H1-hESC	embryonic stem cell:	n/a	n/a
28	MAZ	chr5:111754231-111756321	Hela-S3	cervix:	n/a	chr5:111755892-111755902
29	CHD1	chr5:111755303-111755433	H1-hESC	embryonic stem cell:	n/a	n/a
30	SMC3	chr5:111753598-111756399	Hela-S3	cervix:	n/a	chr5:111755882-111755892 chr5:111756142-111756156
31	MAX	chr5:111755130-111756408	MCF-7	breast:	n/a	chr5:111755892-111755902
32	ZBTB7A	chr5:111754826-111756423	ECC-1	luminal epithelium:	n/a	n/a
33	RAD21	chr5:111755210-111756515	ECC-1	luminal epithelium:	n/a	chr5:111756142-111756152 chr5:111756138-111756157 chr5:111756012-111756021 chr5:111755842-111755855 chr5:111755882-111755892
34	RAD21	chr5:111755369-111756475	H1-hESC	embryonic stem cell:	n/a	chr5:111756142-111756152 chr5:111756138-111756157 chr5:111756012-111756021 chr5:111755842-111755855 chr5:111755882-111755892
35	MXI1	chr5:111755391-111756328	Hela-S3	cervix:	n/a	n/a
36	POLR2A	chr5:111754445-111756332	MCF-7	breast:	n/a	n/a
37	TCF12	chr5:111754769-111756556	ECC-1	luminal epithelium:	n/a	chr5:111755437-111755447
38	EP300	chr5:111754437-111756474	ECC-1	luminal epithelium:	n/a	chr5:111754537-111754546 chr5:111755840-111755856 chr5:111754525-111754541
39	RCOR1	chr5:111754818-111756388	Hela-S3	cervix:	n/a	n/a
40	POLR2A	chr5:111755298-111755431	A549	lung:	n/a	n/a
41	MXI1	chr5:111755354-111755454	H1-hESC	embryonic stem cell:	n/a	n/a
42	YY1	chr5:111755121-111755840	ECC-1	luminal epithelium:	n/a	chr5:111755265-111755276 chr5:111755575-111755584 chr5:111755569-111755583 chr5:111755751-111755765
43	SIN3A	chr5:111753731-111756379	H1-hESC	embryonic stem cell:	n/a	chr5:111754593-111754604 chr5:111755262-111755273
44	TAF1	chr5:111755162-111756187	ECC-1	luminal epithelium:	n/a	n/a
45	SP4	chr5:111755402-111755683	H1-hESC	embryonic stem cell:	n/a	n/a
46	RAD21	chr5:111754739-111756413	H1-hESC	embryonic stem cell:	n/a	chr5:111756142-111756152 chr5:111756138-111756157 chr5:111756012-111756021 chr5:111755842-111755855 chr5:111755882-111755892
47	ZKSCAN1	chr5:111754866-111756307	Hela-S3	cervix:	n/a	chr5:111755123-111755136
48	POLR2A	chr5:111755289-111756215	A549	lung:	n/a	n/a
49	SMARCC1	chr5:111754894-111756321	Hela-S3	cervix:	n/a	n/a
50	CTCF	chr5:111755360-111755510	AG04449	skin:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:111496976..111498708-chr5:111754134..111756098,2	MCF-7	breast:
2	chr5:111495302..111497808-chr5:111754204..111756858,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-APC-8	chr5:111755280-111756677	NONHSAT103228

Variant related genes	Relation type
EPB41L4A	TF binding region
ENSG00000224032	Chromatin interaction
ENSG00000238363	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	nsv1015302	chr5:111339022-111802947	Enhancers Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv537861	chr5:111339022-111802947	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv599368	chr5:111399885-112032675	Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv531291	chr5:111497440-111756788	Enhancers Flanking Active TSS Genic enhancers Active TSS Weak transcription 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	19 gene(s)	inside rSNPs	diseases
5	nsv882714	chr5:111655382-111807579	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv3324210	chr5:111754678-111757226	Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:111752800-111756200	Active TSS	Right Atrium	heart
2	chr5:111752800-111756400	Active TSS	Aorta	Aorta
3	chr5:111753000-111756400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr5:111753000-111756600	Active TSS	Pancreatic Islets	Pancreatic Islet
5	chr5:111753200-111756400	Active TSS	Fetal Heart	heart
6	chr5:111753400-111756000	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
7	chr5:111753400-111756000	Active TSS	Placenta	Placenta
8	chr5:111753400-111756000	Active TSS	Rectal Mucosa Donor 29	rectum
9	chr5:111753400-111756200	Active TSS	Brain Cingulate Gyrus	brain
10	chr5:111753400-111756200	Active TSS	Brain Substantia Nigra	brain
11	chr5:111753400-111756200	Active TSS	Fetal Kidney	kidney
12	chr5:111753400-111756200	Active TSS	NHDF-Ad	bronchial
13	chr5:111753400-111756400	Active TSS	Breast Myoepithelial Primary Cells	Breast
14	chr5:111753400-111756400	Active TSS	Ovary	ovary
15	chr5:111753400-111756400	Active TSS	Right Ventricle	heart
16	chr5:111753400-111756600	Active TSS	Brain Angular Gyrus	brain
17	chr5:111753600-111755800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr5:111753600-111755800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr5:111753600-111756000	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
20	chr5:111753600-111756200	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr5:111753600-111756200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
22	chr5:111753600-111756200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
23	chr5:111753600-111756200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
24	chr5:111753600-111756200	Active TSS	Colon Smooth Muscle	Colon
25	chr5:111753600-111756200	Bivalent/Poised TSS	Fetal Intestine Large	intestine
26	chr5:111753600-111756200	Active TSS	Gastric	stomach
27	chr5:111753600-111756200	Active TSS	Lung	lung
28	chr5:111753600-111756200	Active TSS	Rectal Mucosa Donor 31	rectum
29	chr5:111753600-111756200	Active TSS	Rectal Smooth Muscle	rectum
30	chr5:111753600-111756200	Bivalent/Poised TSS	Thymus	Thymus
31	chr5:111753600-111756200	Active TSS	Hela-S3	cervix
32	chr5:111753600-111756400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
33	chr5:111753600-111756400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr5:111753600-111756400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr5:111753600-111756400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr5:111753600-111756400	Active TSS	Esophagus	oesophagus
37	chr5:111753600-111756400	Active TSS	Left Ventricle	heart
38	chr5:111753600-111756400	Bivalent/Poised TSS	A549	lung
39	chr5:111753600-111756400	Bivalent/Poised TSS	HSMM	muscle
40	chr5:111753600-111756600	Active TSS	Brain Anterior Caudate	brain
41	chr5:111753800-111756000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells	blood
42	chr5:111753800-111756200	Active TSS	Placenta Amnion	Placenta Amnion
43	chr5:111753800-111756200	Flanking Bivalent TSS/Enh	HMEC	breast
44	chr5:111753800-111756200	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
45	chr5:111753800-111756400	Bivalent/Poised TSS	Fetal Stomach	stomach
46	chr5:111754000-111756200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr5:111754000-111756200	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr5:111754000-111756400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
49	chr5:111754200-111755600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
50	chr5:111754200-111755600	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland

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