Variant report

Variant	rs73013985
Chromosome Location	chr3:156391830-156391831
allele	C/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	USF1	chr3:156391717-156392220	A549	lung:	n/a	n/a
2	ZNF384	chr3:156391727-156392588	K562	blood:	n/a	n/a
3	POLR2A	chr3:156391646-156392735	PANC-1	pancreas:	n/a	n/a
4	POLR2A	chr3:156391697-156392713	K562	blood:	n/a	n/a
5	CTCF	chr3:156391800-156391950	Hela-S3	cervix:	n/a	n/a
6	ZMIZ1	chr3:156391645-156392679	K562	blood:	n/a	n/a
7	TBP	chr3:156391749-156392799	HepG2	liver:	n/a	n/a
8	SMARCC1	chr3:156391667-156393085	Hela-S3	cervix:	n/a	n/a
9	ESR1	chr3:156391829-156392290	ECC-1	luminal epithelium:	n/a	chr3:156392046-156392061
10	FOXA1	chr3:156391645-156392432	HepG2	liver:	n/a	chr3:156391973-156391985
11	YY1	chr3:156391670-156392600	ECC-1	luminal epithelium:	n/a	chr3:156391875-156391886 chr3:156392315-156392329 chr3:156392439-156392448
12	POLR2A	chr3:156391811-156391832	H1-hESC	embryonic stem cell:	n/a	n/a
13	MAX	chr3:156391520-156392851	MCF-7	breast:	n/a	n/a
14	RCOR1	chr3:156391602-156392546	GM12878	blood:	n/a	n/a
15	TEAD4	chr3:156391707-156392530	ECC-1	luminal epithelium:	n/a	n/a
16	MAX	chr3:156391469-156392784	MCF-7	breast:	n/a	n/a
17	EP300	chr3:156391670-156392557	H1-hESC	embryonic stem cell:	n/a	n/a
18	FOXA1	chr3:156391678-156392230	HepG2	liver:	n/a	chr3:156391973-156391985
19	POLR2A	chr3:156391542-156392766	H1-neurons	neurons:	n/a	n/a
20	IRF3	chr3:156391751-156392159	GM12878	blood:	n/a	n/a
21	ELF1	chr3:156391754-156392071	HepG2	liver:	n/a	n/a
22	POLR2A	chr3:156391392-156394830	MCF10A-Er-Src	breast:	n/a	n/a
23	ATF1	chr3:156391740-156392525	K562	blood:	n/a	n/a
24	POLR2A	chr3:156391750-156392837	Gliobla	brain:	n/a	n/a
25	MXI1	chr3:156391527-156396530	IMR90	lung:	n/a	n/a
26	RAD21	chr3:156391634-156392399	HepG2	liver:	n/a	chr3:156392246-156392256
27	CTCF	chr3:156391780-156391930	GM12866	blood:	n/a	n/a
28	POLR2A	chr3:156391586-156392716	H1-neurons	neurons:	n/a	n/a
29	CUX1	chr3:156391773-156392212	K562	blood:	n/a	n/a
30	EP300	chr3:156391632-156392443	MCF-7	breast:	n/a	n/a
31	POLR2A	chr3:156391803-156392681	NB4	blood:	n/a	n/a
32	CTCF	chr3:156391594-156393671	GM12878	blood:	n/a	chr3:156393431-156393449 chr3:156393432-156393448 chr3:156392243-156392256
33	SP1	chr3:156391619-156392643	A549	lung:	n/a	chr3:156392324-156392336 chr3:156392249-156392259 chr3:156392248-156392260 chr3:156392169-156392179 chr3:156392169-156392179 chr3:156392250-156392259 chr3:156392295-156392305 chr3:156392248-156392260
34	CTCF	chr3:156391661-156392697	IMR90	lung:	n/a	chr3:156392243-156392256
35	RELA	chr3:156391567-156392600	GM18505	blood:	n/a	n/a
36	NR3C1	chr3:156391804-156392232	A549	lung:	n/a	n/a
37	TCF12	chr3:156391600-156392208	H1-hESC	embryonic stem cell:	n/a	n/a
38	RAD21	chr3:156391256-156394283	SK-N-SH	brain:	n/a	chr3:156392246-156392256 chr3:156393667-156393674
39	BCL11A	chr3:156391698-156392202	GM12878	blood:	n/a	chr3:156391838-156391851
40	SIN3A	chr3:156391673-156393956	H1-hESC	embryonic stem cell:	n/a	chr3:156393307-156393318 chr3:156393409-156393418
41	CTCF	chr3:156391800-156391950	HMF	breast:	n/a	n/a
42	PML	chr3:156391671-156392740	MCF-7	breast:	n/a	n/a
43	CTCF	chr3:156391539-156392326	A549	lung:	n/a	chr3:156392243-156392256
44	CTCF	chr3:156391761-156392263	Medullo	brain:	n/a	chr3:156392243-156392256
45	POLR2A	chr3:156391729-156392974	A549	lung:	n/a	n/a
46	YY1	chr3:156391592-156392572	GM12878	blood:	n/a	chr3:156391875-156391886 chr3:156392315-156392329 chr3:156392439-156392448
47	POLR2A	chr3:156391537-156394159	HL-60	blood:	n/a	n/a
48	TAF1	chr3:156391788-156392607	H1-hESC	embryonic stem cell:	n/a	n/a
49	RCOR1	chr3:156391586-156392741	HepG2	liver:	n/a	n/a
50	CTCF	chr3:156391700-156391850	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:156390449..156395705-chr3:156876136..156879645,10	MCF-7	breast:
2	chr3:156391507..156394071-chr3:156396999..156400389,4	MCF-7	breast:
3	chr3:156270771..156274735-chr3:156390391..156394038,18	K562	blood:
4	chr3:156390967..156393612-chr3:156877452..156879722,5	K562	blood:
5	chr3:156391796..156394617-chr3:156542307..156544876,4	K562	blood:
6	chr3:156268357..156274553-chr3:156389283..156394606,15	MCF-7	breast:
7	chr3:156391432..156392673-chr3:156799216..156800183,12	MCF-7	breast:
8	chr3:156391537..156393857-chr3:156543728..156545632,2	K562	blood:
9	chr3:156389452..156396391-chr3:156801976..156809206,19	MCF-7	breast:
10	chr3:156388866..156397270-chr3:156524172..156537549,71	MCF-7	breast:
11	chr3:156391529..156394159-chr3:156805680..156808214,2	K562	blood:
12	chr3:156391768..156393756-chr3:156838455..156841015,3	K562	blood:
13	chr12:92538568..92539165-chr3:156391568..156392141,2	Hela-S3	cervix:
14	chr3:156272378..156273447-chr3:156391539..156392497,3	NB4	blood:
15	chr3:156391446..156393768-chr3:156890974..156892598,2	MCF-7	breast:
16	chr3:156391356..156392486-chr3:156799238..156800133,4	K562	blood:
17	chr3:156269857..156276442-chr3:156389324..156394083,11	MCF-7	breast:
18	chr3:156391251..156395598-chr3:156875832..156879722,8	K562	blood:
19	chr3:156272675..156273484-chr3:156391601..156392336,4	MCF-7	breast:
20	chr3:156391825..156392818-chr4:140005100..140005618,2	Hela-S3	cervix:
21	chr3:156391202..156392503-chr3:156799357..156800312,5	MCF-7	breast:
22	chr3:156391482..156392232-chr7:10979248..10979918,2	HCT-116	colon:
23	chr3:156260735..156275674-chr3:156389736..156397850,44	K562	blood:
24	chr3:156389670..156395497-chr3:156530360..156537244,22	MCF-7	breast:
25	chr3:156390293..156396385-chr3:156542364..156548172,18	MCF-7	breast:
26	chr3:156390535..156395368-chr3:156542467..156546251,7	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SSR3-2	chr3:156390960-156393502	NONHSAT092861

Variant related genes	Relation type
TIPARP-AS1	TF binding region
TIPARP	TF binding region
ENSG00000163659	Chromatin interaction
ENSG00000114850	Chromatin interaction
ENSG00000133639	Chromatin interaction
ENSG00000189043	Chromatin interaction
ENSG00000243629	Chromatin interaction
ENSG00000197980	Chromatin interaction
ENSG00000109381	Chromatin interaction
ENSG00000230457	Chromatin interaction
ENSG00000241544	Chromatin interaction
ENSG00000241135	Chromatin interaction
ENSG00000240875	Chromatin interaction
ENSG00000163660	Chromatin interaction
ENSG00000222675	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11918032	1.00[EUR][1000 genomes]
rs11918873	1.00[EUR][1000 genomes]
rs11918949	1.00[EUR][1000 genomes]
rs11921057	1.00[EUR][1000 genomes]
rs11925276	1.00[EUR][1000 genomes]
rs12106760	1.00[EUR][1000 genomes]
rs12106846	1.00[EUR][1000 genomes]
rs12107991	1.00[EUR][1000 genomes]
rs12107994	1.00[EUR][1000 genomes]
rs16826244	1.00[EUR][1000 genomes]
rs16826248	1.00[EUR][1000 genomes]
rs16826250	1.00[EUR][1000 genomes]
rs16826264	1.00[EUR][1000 genomes]
rs16826610	1.00[EUR][1000 genomes]
rs56772168	1.00[EUR][1000 genomes]
rs57676345	1.00[EUR][1000 genomes]
rs6441071	1.00[EUR][1000 genomes]
rs6441073	1.00[EUR][1000 genomes]
rs6774975	1.00[EUR][1000 genomes]
rs6788106	1.00[EUR][1000 genomes]
rs6789293	1.00[EUR][1000 genomes]
rs73012043	1.00[EUR][1000 genomes]
rs73013921	1.00[EUR][1000 genomes]
rs73013929	1.00[EUR][1000 genomes]
rs73013931	1.00[EUR][1000 genomes]
rs73014000	1.00[EUR][1000 genomes]
rs73015891	1.00[EUR][1000 genomes]
rs73017741	1.00[EUR][1000 genomes]
rs73019707	1.00[EUR][1000 genomes]
rs73019709	1.00[EUR][1000 genomes]
rs73019730	1.00[EUR][1000 genomes]
rs73019732	1.00[EUR][1000 genomes]
rs73019733	1.00[EUR][1000 genomes]
rs73021795	1.00[EUR][1000 genomes]
rs73021801	1.00[EUR][1000 genomes]
rs73025844	1.00[EUR][1000 genomes]
rs73025863	1.00[EUR][1000 genomes]
rs73025882	1.00[EUR][1000 genomes]
rs73025895	1.00[EUR][1000 genomes]
rs73025901	1.00[EUR][1000 genomes]
rs7612186	1.00[EUR][1000 genomes]
rs7621244	1.00[EUR][1000 genomes]
rs7623810	1.00[EUR][1000 genomes]
rs7652081	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156391000-156393000	Active TSS	Fetal Brain Male	brain
2	chr3:156391200-156392200	Flanking Active TSS	Dnd41	blood
3	chr3:156391200-156394000	Active TSS	Fetal Kidney	kidney
4	chr3:156391400-156392000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
5	chr3:156391400-156392000	Active TSS	Primary T regulatory cells fromperipheralblood	blood
6	chr3:156391400-156392000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:156391400-156392000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:156391400-156392000	Flanking Active TSS	Duodenum Mucosa	Duodenum
9	chr3:156391400-156392000	Flanking Active TSS	Fetal Intestine Small	intestine
10	chr3:156391400-156392400	Active TSS	Brain Germinal Matrix	brain
11	chr3:156391400-156393400	Active TSS	Fetal Brain Female	brain
12	chr3:156391400-156393600	Active TSS	HUES64 Cell Line	embryonic stem cell
13	chr3:156391400-156393600	Active TSS	Skeletal Muscle Male	skeletal muscle
14	chr3:156391400-156393800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:156391400-156393800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:156391400-156393800	Active TSS	Primary hematopoietic stem cells short term culture	blood
17	chr3:156391400-156393800	Active TSS	Brain Anterior Caudate	brain
18	chr3:156391400-156393800	Active TSS	Brain Hippocampus Middle	brain
19	chr3:156391400-156393800	Active TSS	Stomach Smooth Muscle	stomach
20	chr3:156391400-156394000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr3:156391400-156394000	Active TSS	Adipose Nuclei	Adipose
22	chr3:156391400-156394200	Active TSS	Pancreatic Islets	Pancreatic Islet
23	chr3:156391400-156394200	Active TSS	Osteobl	bone
24	chr3:156391400-156394600	Active TSS	ES-I3 Cell Line	embryonic stem cell
25	chr3:156391400-156395000	Active TSS	Breast Myoepithelial Primary Cells	Breast
26	chr3:156391400-156395000	Active TSS	Rectal Mucosa Donor 29	rectum
27	chr3:156391400-156395200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:156391400-156395200	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr3:156391400-156395200	Active TSS	Psoas Muscle	Psoas
30	chr3:156391600-156392000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr3:156391600-156392000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
32	chr3:156391600-156392000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
33	chr3:156391600-156392000	Flanking Active TSS	Primary T cells fromperipheralblood	blood
34	chr3:156391600-156392000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr3:156391600-156392000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
36	chr3:156391600-156392000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr3:156391600-156392000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr3:156391600-156392000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
39	chr3:156391600-156392000	Flanking Active TSS	Fetal Lung	lung
40	chr3:156391600-156392000	Flanking Active TSS	Fetal Muscle Leg	muscle
41	chr3:156391600-156392000	Flanking Active TSS	Placenta	Placenta
42	chr3:156391600-156392000	Flanking Active TSS	HMEC	breast
43	chr3:156391600-156392200	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr3:156391600-156392200	Flanking Active TSS	Fetal Thymus	thymus
45	chr3:156391600-156392200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
46	chr3:156391600-156392400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr3:156391600-156392600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr3:156391600-156393400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
49	chr3:156391600-156393600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr3:156391600-156393800	Active TSS	ES-WA7 Cell Line	embryonic stem cell

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