Variant report

Variant	rs1078153
Chromosome Location	chr3:101293676-101293677
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:205)
CpG islands
(count:61)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:205 , 50 per page) page: 1 2 3 4 5

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:101292392-101293981	HUVEC	blood vessel:	n/a	n/a
2	POLR2A	chr3:101292316-101293989	Hela-S3	cervix:	n/a	n/a
3	CHD1	chr3:101292462-101294186	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr3:101292472-101293977	GM12891	blood:	n/a	n/a
5	USF2	chr3:101293550-101294101	Hela-S3	cervix:	n/a	n/a
6	MYC	chr3:101292327-101294134	A549	lung:	n/a	chr3:101294017-101294024
7	UBTF	chr3:101292321-101293988	K562	blood:	n/a	n/a
8	POLR2A	chr3:101292266-101293947	PANC-1	pancreas:	n/a	n/a
9	POLR2A	chr3:101293372-101293950	U87	brain:	n/a	n/a
10	POLR2A	chr3:101292382-101294161	IMR90	lung:	n/a	n/a
11	POLR2A	chr3:101292210-101294038	A549	lung:	n/a	n/a
12	POLR2A	chr3:101292326-101294017	K562	blood:	n/a	n/a
13	UBTF	chr3:101292734-101294023	K562	blood:	n/a	n/a
14	TCF7L2	chr3:101292511-101293956	HCT-116	colon:	n/a	chr3:101293787-101293803 chr3:101293791-101293800
15	RELA	chr3:101292454-101293900	GM18951	blood:	n/a	n/a
16	POLR2A	chr3:101292215-101294005	HUVEC	blood vessel:	n/a	n/a
17	POLR2A	chr3:101292470-101294002	MCF-7	breast:	n/a	n/a
18	MXI1	chr3:101292384-101294168	GM12878	blood:	n/a	chr3:101293538-101293553
19	RUNX3	chr3:101292270-101293973	GM12878	blood:	n/a	n/a
20	POLR2A	chr3:101292177-101293909	HUVEC	blood vessel:	n/a	n/a
21	TAF1	chr3:101292701-101293783	Hela-S3	cervix:	n/a	n/a
22	TAF1	chr3:101292423-101294014	H1-hESC	embryonic stem cell:	n/a	n/a
23	MAX	chr3:101292357-101293957	HepG2	liver:	n/a	n/a
24	CREB1	chr3:101292556-101293687	A549	lung:	n/a	n/a
25	POLR2A	chr3:101292350-101294000	GM19099	blood:	n/a	n/a
26	MXI1	chr3:101293480-101294109	H1-hESC	embryonic stem cell:	n/a	chr3:101293538-101293553
27	POLR2A	chr3:101291764-101294002	HepG2	liver:	n/a	n/a
28	TAF1	chr3:101292387-101293684	GM12878	blood:	n/a	n/a
29	STAT5A	chr3:101293503-101293885	GM12878	blood:	n/a	n/a
30	REST	chr3:101292166-101294104	H1-neurons	neurons:	n/a	n/a
31	SIN3A	chr3:101292433-101293903	GM12878	blood:	n/a	n/a
32	MAZ	chr3:101292565-101293688	Hela-S3	cervix:	n/a	n/a
33	POLR2A	chr3:101292546-101293853	ECC-1	luminal epithelium:	n/a	n/a
34	POLR2A	chr3:101292557-101293930	K562	blood:	n/a	n/a
35	YY1	chr3:101292459-101293811	A549	lung:	n/a	chr3:101293049-101293069
36	TCF7L2	chr3:101293508-101293987	Hela-S3	cervix:	n/a	chr3:101293787-101293803 chr3:101293791-101293800
37	WRNIP1	chr3:101292195-101294066	GM12878	blood:	n/a	n/a
38	POLR2A	chr3:101292114-101293964	K562	blood:	n/a	n/a
39	ZKSCAN1	chr3:101292432-101293763	Hela-S3	cervix:	n/a	n/a
40	JUN	chr3:101292316-101294167	K562	blood:	n/a	chr3:101292900-101292913 chr3:101292901-101292910
41	POLR2A	chr3:101292260-101293908	Raji	blood:	n/a	n/a
42	RCOR1	chr3:101292366-101293989	Hela-S3	cervix:	n/a	n/a
43	POLR2A	chr3:101292561-101293771	MCF-7	breast:	n/a	n/a
44	TAF1	chr3:101292361-101293702	A549	lung:	n/a	n/a
45	POLR2A	chr3:101292450-101293805	H1-neurons	neurons:	n/a	n/a
46	POU2F2	chr3:101292538-101293704	GM12891	blood:	n/a	n/a
47	POLR2A	chr3:101292554-101293693	HCT-116	colon:	n/a	n/a
48	FOXM1	chr3:101292306-101293783	GM12878	blood:	n/a	n/a
49	TBP	chr3:101292267-101293964	HepG2	liver:	n/a	n/a
50	MTA3	chr3:101292022-101294144	GM12878	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr3:101293650-101293700	MCF-7	breast:	n/a
2	chr3:101293650-101293700	HPAEpiC	pulmonary alveolar:	n/a
3	chr3:101293650-101293700	IMR90	lung:	fetal
4	chr3:101293650-101293700	HMEC	breast:	n/a
5	chr3:101293650-101293700	HUVEC	blood vessel:	n/a
6	chr3:101293650-101293700	GM19239	blood:	n/a
7	chr3:101293650-101293700	BJ	skin:	n/a
8	chr3:101293650-101293700	Caco-2	colon:	n/a
9	chr3:101293650-101293700	HNPCEpiC	eye:	n/a
10	chr3:101293650-101293700	SK-N-SH_RA	brain:	n/a
11	chr3:101293650-101293700	ProgFib	skin:	n/a
12	chr3:101293650-101293700	NHBE	bronchial:	n/a
13	chr3:101293650-101293700	GM06990	blood:	n/a
14	chr3:101293650-101293700	SK-N-SH	brain:	n/a
15	chr3:101293650-101293700	GM12891	blood:	n/a
16	chr3:101293650-101293700	HCPEpiC	choroid plexus:	n/a
17	chr3:101293650-101293700	NB4	blood:	n/a
18	chr3:101293650-101293700	Hela-S3	cervix:	n/a
19	chr3:101293650-101293700	RPTEC	kidney:	n/a
20	chr3:101293650-101293700	T-47D	breast:	n/a
21	chr3:101293650-101293700	AG09309	skin:	n/a
22	chr3:101293650-101293700	GM12892	blood:	n/a
23	chr3:101293650-101293700	NH-A	brain:	n/a
24	chr3:101293650-101293700	AG04450	lung:	fetal
25	chr3:101293650-101293700	U87	brain:	n/a
26	chr3:101293650-101293700	HAEpiC	amniotic membrane:	n/a
27	chr3:101293650-101293700	NT2-D1	testis:	n/a
28	chr3:101293650-101293700	AoSMC	blood vessel:	n/a
29	chr3:101293650-101293700	HL-60	blood:	n/a
30	chr3:101293650-101293700	HRE	kidney:	n/a
31	chr3:101293650-101293700	A549	lung:	n/a
32	chr3:101293650-101293700	GM12878	blood:	n/a
33	chr3:101293650-101293700	SAEC	small airway:	n/a
34	chr3:101293650-101293700	LNCaP	prostate:	n/a
35	chr3:101293650-101293700	HRPEpiC	eye:	n/a
36	chr3:101293650-101293700	MCF10A-Er-Src	breast:	n/a
37	chr3:101293650-101293700	HCF	heart:	n/a
38	chr3:101293650-101293700	H1-hESC	embryonic stem cell:	embryo
39	chr3:101293650-101293700	ECC-1	luminal epithelium:	n/a
40	chr3:101293650-101293700	CMK	blood:	n/a
41	chr3:101293650-101293700	ovcar-3	ovarian:	n/a
42	chr3:101293650-101293700	Hepatocyte	liver:	n/a
43	chr3:101293650-101293700	HepG2	liver:	n/a
44	chr3:101293650-101293700	HCT-116	colon:	n/a
45	chr3:101293650-101293700	PFSK-1	brain:	n/a
46	chr3:101293650-101293700	HCM	heart:	n/a
47	chr3:101293650-101293700	K562	blood:	n/a
48	chr3:101293650-101293700	SK-N-MC	brain:	n/a
49	chr3:101293650-101293700	HEK293	kidney:	embryo
50	chr3:101293650-101293700	NHDF-neo	bronchial:	n/a

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:101230224..101236227-chr3:101287209..101294479,8	K562	blood:
2	chr3:101293011..101294602-chr3:101404209..101407193,2	K562	blood:
3	chr3:101293029..101293955-chr5:43120888..43121551,2	Hela-S3	cervix:
4	chr3:101230669..101232356-chr3:101291492..101293831,2	K562	blood:
5	chr3:101289369..101294999-chr3:101391357..101396813,8	K562	blood:
6	chr3:101291696..101294315-chr3:101429379..101432021,3	K562	blood:
7	chr3:101291104..101295547-chr3:101393750..101397705,12	MCF-7	breast:
8	chr3:101230038..101233245-chr3:101289410..101293829,6	MCF-7	breast:
9	chr3:101291780..101294720-chr3:101394004..101396565,4	K562	blood:
10	chr3:101293308..101296113-chr3:101394030..101397396,3	MCF-7	breast:
11	chr3:101290641..101295184-chr3:101404268..101406806,5	MCF-7	breast:
12	chr3:101291201..101295304-chr3:101402286..101407928,8	MCF-7	breast:
13	chr3:101240327..101242182-chr3:101291977..101294150,2	MCF-7	breast:

No data

Variant related genes	Relation type
PCNP	TF binding region
PCNP	CpG island
ENSG00000175841	Chromatin interaction
ENSG00000114391	Chromatin interaction
ENSG00000066422	Chromatin interaction
ENSG00000138468	Chromatin interaction
ENSG00000244119	Chromatin interaction
ENSG00000172262	Chromatin interaction
ENSG00000256628	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11924203	0.89[EUR][1000 genomes]
rs11929578	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs12491044	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12696325	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13072446	0.87[EUR][1000 genomes]
rs1426386	0.96[EUR][1000 genomes]
rs1464361	0.89[EUR][1000 genomes]
rs1569071	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2433032	0.86[EUR][1000 genomes]
rs2449824	0.89[EUR][1000 genomes]
rs2460721	0.89[EUR][1000 genomes]
rs2553414	0.89[EUR][1000 genomes]
rs2553420	0.89[EUR][1000 genomes]
rs2553423	0.89[EUR][1000 genomes]
rs2553428	0.88[EUR][1000 genomes]
rs2682387	0.89[EUR][1000 genomes]
rs2682389	0.86[EUR][1000 genomes]
rs3846092	0.89[CEU][hapmap];0.96[EUR][1000 genomes]
rs41273611	0.89[EUR][1000 genomes]
rs4234491	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4683930	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61379928	0.89[EUR][1000 genomes]
rs6763679	0.89[EUR][1000 genomes]
rs6764700	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs6768114	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6768182	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6779278	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6779775	0.96[EUR][1000 genomes]
rs6788864	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6791803	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs6794860	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs6805496	0.86[CEU][hapmap];0.89[EUR][1000 genomes]
rs6806256	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs6809436	1.00[CEU][hapmap]
rs72942230	0.89[EUR][1000 genomes]
rs72942264	0.89[EUR][1000 genomes]
rs72948053	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7613194	0.87[EUR][1000 genomes]
rs7618600	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs7621062	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7638284	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7644519	0.89[EUR][1000 genomes]
rs7645698	0.86[EUR][1000 genomes]
rs7648141	0.88[EUR][1000 genomes]
rs9820611	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9917699	0.89[EUR][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101291400-101294800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:101291600-101295000	Active TSS	K562	blood
3	chr3:101292000-101293800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:101292000-101293800	Active TSS	Rectal Mucosa Donor 29	rectum
5	chr3:101292000-101294400	Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr3:101292000-101294400	Active TSS	Fetal Muscle Leg	muscle
7	chr3:101292000-101294600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:101292000-101294800	Active TSS	H1 Cell Line	embryonic stem cell
9	chr3:101292000-101294800	Active TSS	Right Ventricle	heart
10	chr3:101292000-101295000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:101292000-101295200	Active TSS	Psoas Muscle	Psoas
12	chr3:101292200-101294000	Active TSS	Esophagus	oesophagus
13	chr3:101292200-101294000	Active TSS	Left Ventricle	heart
14	chr3:101292200-101294000	Bivalent/Poised TSS	HepG2	liver
15	chr3:101292200-101294200	Active TSS	H9 Cell Line	embryonic stem cell
16	chr3:101292200-101294200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr3:101292200-101294200	Active TSS	Fetal Muscle Trunk	muscle
18	chr3:101292200-101294400	Active TSS	iPS-18 Cell Line	embryonic stem cell
19	chr3:101292200-101294400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr3:101292200-101294400	Active TSS	Placenta Amnion	Placenta Amnion
21	chr3:101292200-101294600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:101292200-101295000	Active TSS	Right Atrium	heart
23	chr3:101292400-101293800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
24	chr3:101292400-101294000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:101292400-101294000	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:101292400-101294000	Active TSS	Cortex derived primary cultured neurospheres	brain
27	chr3:101292400-101294000	Active TSS	Brain Hippocampus Middle	brain
28	chr3:101292400-101294000	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr3:101292400-101294000	Active TSS	Fetal Brain Male	brain
30	chr3:101292400-101294000	Active TSS	Ovary	ovary
31	chr3:101292400-101294000	Active TSS	Pancreas	Pancrea
32	chr3:101292400-101294000	Active TSS	Rectal Mucosa Donor 31	rectum
33	chr3:101292400-101294000	Active TSS	Skeletal Muscle Male	skeletal muscle
34	chr3:101292400-101294000	Active TSS	HUVEC	blood vessel
35	chr3:101292400-101294200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
36	chr3:101292400-101294200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr3:101292400-101294200	Active TSS	HUES64 Cell Line	embryonic stem cell
38	chr3:101292400-101294200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr3:101292400-101294200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr3:101292400-101294200	Active TSS	Primary hematopoietic stem cells short term culture	blood
41	chr3:101292400-101294200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr3:101292400-101294200	Active TSS	Fetal Heart	heart
43	chr3:101292400-101294200	Active TSS	Fetal Intestine Large	intestine
44	chr3:101292400-101294200	Active TSS	Placenta	Placenta
45	chr3:101292400-101294200	Active TSS	Rectal Smooth Muscle	rectum
46	chr3:101292400-101294400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr3:101292400-101294400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
48	chr3:101292400-101294400	Active TSS	Fetal Intestine Small	intestine
49	chr3:101292400-101294400	Active TSS	Fetal Stomach	stomach
50	chr3:101292400-101294400	Active TSS	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links