Variant report

Variant	rs13315282
Chromosome Location	chr3:49028114-49028115
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	POLR2A	chr3:49028112-49028582	U87	brain:	n/a	n/a
2	POLR2A	chr3:49027953-49028677	Hela-S3	cervix:	n/a	n/a
3	CTCF	chr3:49028020-49028170	GM12871	blood:	n/a	n/a
4	MAX	chr3:49027552-49028707	H1-hESC	embryonic stem cell:	n/a	chr3:49028416-49028429 chr3:49028409-49028425 chr3:49028417-49028426 chr3:49028416-49028429 chr3:49028416-49028429 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028417-49028428
5	SIN3AK20	chr3:49027333-49028357	PANC-1	pancreas:	n/a	n/a
6	POLR2A	chr3:49026933-49028739	HL-60	blood:	n/a	n/a
7	YY1	chr3:49027164-49028633	NT2-D1	testis:	n/a	chr3:49028436-49028448 chr3:49028438-49028448
8	POLR2A	chr3:49027049-49028577	GM12878	blood:	n/a	n/a
9	POLR2A	chr3:49026960-49028572	Raji	blood:	n/a	n/a
10	YY1	chr3:49028067-49028730	H1-hESC	embryonic stem cell:	n/a	chr3:49028436-49028448 chr3:49028438-49028448
11	POLR2A	chr3:49027058-49028607	HL-60	blood:	n/a	n/a
12	E2F6	chr3:49028095-49028610	A549	lung:	n/a	n/a
13	USF1	chr3:49027998-49028587	GM12878	blood:	n/a	n/a
14	E2F6	chr3:49026467-49028703	H1-hESC	embryonic stem cell:	n/a	chr3:49026928-49026940 chr3:49026927-49026938
15	POLR2A	chr3:49028010-49028339	HUVEC	blood vessel:	n/a	n/a
16	MAX	chr3:49026613-49028771	A549	lung:	n/a	chr3:49028416-49028429 chr3:49028409-49028425 chr3:49028417-49028426 chr3:49028416-49028429 chr3:49028416-49028429 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028417-49028428
17	POLR2A	chr3:49026762-49028134	H1-neurons	neurons:	n/a	n/a
18	POLR2A	chr3:49026939-49028598	Hela-S3	cervix:	n/a	n/a
19	YY1	chr3:49027142-49028923	GM12892	blood:	n/a	chr3:49028436-49028448 chr3:49028438-49028448
20	TCF3	chr3:49027434-49028314	GM12878	blood:	n/a	n/a
21	SMARCB1	chr3:49026969-49028447	Hela-S3	cervix:	n/a	n/a
22	USF1	chr3:49028107-49028651	A549	lung:	n/a	n/a
23	POLR2A	chr3:49026954-49028599	MCF-7	breast:	n/a	n/a
24	YY1	chr3:49027151-49028940	GM12891	blood:	n/a	chr3:49028436-49028448 chr3:49028438-49028448
25	POLR2A	chr3:49027189-49028530	HCT-116	colon:	n/a	n/a
26	POLR2A	chr3:49026909-49028708	PBDE	blood:	n/a	n/a
27	TAF1	chr3:49026939-49028629	ECC-1	luminal epithelium:	n/a	n/a
28	MAX	chr3:49027639-49028756	H1-hESC	embryonic stem cell:	n/a	chr3:49028416-49028429 chr3:49028409-49028425 chr3:49028417-49028426 chr3:49028416-49028429 chr3:49028416-49028429 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028417-49028428
29	POLR2A	chr3:49027003-49028511	GM12892	blood:	n/a	n/a
30	CHD1	chr3:49027923-49028371	H1-hESC	embryonic stem cell:	n/a	n/a
31	PML	chr3:49026900-49028828	GM12878	blood:	n/a	n/a
32	MAX	chr3:49027105-49028606	GM12878	blood:	n/a	chr3:49028416-49028429 chr3:49028409-49028425 chr3:49028417-49028426 chr3:49028416-49028429 chr3:49028416-49028429 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028417-49028428
33	POLR2A	chr3:49027072-49028482	A549	lung:	n/a	n/a
34	POLR2A	chr3:49027075-49028481	GM19193	blood:	n/a	n/a
35	POLR2A	chr3:49026889-49028552	MCF-7	breast:	n/a	n/a
36	STAT5A	chr3:49027697-49028372	GM12878	blood:	n/a	n/a
37	POLR2A	chr3:49026887-49028782	GM12878	blood:	n/a	n/a
38	REST	chr3:49026661-49028899	H1-neurons	neurons:	n/a	n/a
39	YY1	chr3:49027133-49028886	GM12878	blood:	n/a	chr3:49028436-49028448 chr3:49028438-49028448
40	POLR2A	chr3:49026935-49028580	ECC-1	luminal epithelium:	n/a	n/a
41	ELF1	chr3:49026902-49028521	GM12878	blood:	n/a	n/a
42	MAX	chr3:49026614-49028712	ECC-1	luminal epithelium:	n/a	chr3:49028416-49028429 chr3:49028409-49028425 chr3:49028417-49028426 chr3:49028416-49028429 chr3:49028416-49028429 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028417-49028428
43	TFAP2A	chr3:49026608-49028343	Hela-S3	cervix:	n/a	chr3:49026760-49026772 chr3:49026760-49026772 chr3:49026760-49026772 chr3:49026760-49026772
44	POLR2A	chr3:49027055-49028449	GM19099	blood:	n/a	n/a
45	MAX	chr3:49026483-49028883	HCT-116	colon:	n/a	chr3:49028416-49028429 chr3:49028409-49028425 chr3:49028417-49028426 chr3:49028416-49028429 chr3:49028416-49028429 chr3:49028778-49028788 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028417-49028428
46	MAX	chr3:49026648-49028617	ECC-1	luminal epithelium:	n/a	chr3:49028416-49028429 chr3:49028409-49028425 chr3:49028417-49028426 chr3:49028416-49028429 chr3:49028416-49028429 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028418-49028427 chr3:49028417-49028428
47	HA-E2F1	chr3:49027072-49028434	Hela-S3	cervix:	n/a	n/a
48	CTCF	chr3:49028020-49028170	GM12864	blood:	n/a	n/a
49	POLR2A	chr3:49028003-49028398	A549	lung:	n/a	n/a
50	POLR2A	chr3:49027024-49028589	GM18505	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:49018277..49020760-chr3:49026748..49028672,2	K562	blood:
2	chr3:49025745..49029382-chr3:49129931..49133067,7	MCF-7	breast:
3	chr3:49020718..49024662-chr3:49025356..49028743,6	K562	blood:
4	chr3:49026902..49029437-chr3:49031903..49033924,2	K562	blood:
5	chr3:49027258..49030137-chr3:49142521..49145382,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000273211	TF binding region
ENSG00000223343	TF binding region
ENSG00000172053	Chromatin interaction
ENSG00000198218	Chromatin interaction
ENSG00000273211	Chromatin interaction
ENSG00000235236	Chromatin interaction
ENSG00000177479	Chromatin interaction
ENSG00000178467	Chromatin interaction

rs_ID	r²[population]
rs28413015	1.00[AMR][1000 genomes]
rs3923913	1.00[AMR][1000 genomes]
rs7430684	1.00[AMR][1000 genomes]
rs9811724	1.00[AMR][1000 genomes]
rs9826085	1.00[AMR][1000 genomes]
rs9838123	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9841401	1.00[AMR][1000 genomes]
rs9850498	1.00[AMR][1000 genomes]

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49026400-49028400	Active TSS	iPS-15b Cell Line	embryonic stem cell
2	chr3:49026600-49028400	Active TSS	Lung	lung
3	chr3:49026600-49028400	Active TSS	Small Intestine	intestine
4	chr3:49026600-49028800	Active TSS	Pancreatic Islets	Pancreatic Islet
5	chr3:49026600-49028800	Active TSS	Gastric	stomach
6	chr3:49026600-49029200	Flanking Active TSS	Adipose Nuclei	Adipose
7	chr3:49026600-49029400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
8	chr3:49026800-49028200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:49026800-49028200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:49026800-49028400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:49026800-49028600	Active TSS	H9 Cell Line	embryonic stem cell
12	chr3:49026800-49028600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:49026800-49028600	Active TSS	Ovary	ovary
14	chr3:49026800-49028800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:49026800-49028800	Active TSS	Aorta	Aorta
16	chr3:49026800-49028800	Flanking Active TSS	Liver	Liver
17	chr3:49026800-49028800	Flanking Active TSS	HMEC	breast
18	chr3:49026800-49029200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:49027000-49028200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:49027000-49028200	Active TSS	Esophagus	oesophagus
21	chr3:49027000-49028200	Active TSS	HSMMtube	muscle
22	chr3:49027000-49028400	Active TSS	H1 Cell Line	embryonic stem cell
23	chr3:49027000-49028400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:49027000-49028400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:49027000-49028400	Active TSS	HUES48 Cell Line	embryonic stem cell
26	chr3:49027000-49028400	Active TSS	iPS-18 Cell Line	embryonic stem cell
27	chr3:49027000-49028400	Active TSS	iPS-20b Cell Line	embryonic stem cell
28	chr3:49027000-49028400	Active TSS	Brain Anterior Caudate	brain
29	chr3:49027000-49028400	Active TSS	Colon Smooth Muscle	Colon
30	chr3:49027000-49028400	Active TSS	Fetal Kidney	kidney
31	chr3:49027000-49028400	Active TSS	Left Ventricle	heart
32	chr3:49027000-49028400	Active TSS	Psoas Muscle	Psoas
33	chr3:49027000-49028400	Active TSS	Rectal Smooth Muscle	rectum
34	chr3:49027000-49028400	Active TSS	Right Atrium	heart
35	chr3:49027000-49028400	Active TSS	NHDF-Ad	bronchial
36	chr3:49027000-49028600	Active TSS	ES-I3 Cell Line	embryonic stem cell
37	chr3:49027000-49028600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
38	chr3:49027000-49028600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr3:49027000-49028600	Active TSS	HUES64 Cell Line	embryonic stem cell
40	chr3:49027000-49028600	Active TSS	Brain Cingulate Gyrus	brain
41	chr3:49027000-49028600	Active TSS	A549	lung
42	chr3:49027000-49028600	Active TSS	Hela-S3	cervix
43	chr3:49027000-49028800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
44	chr3:49027000-49029000	Active TSS	HSMM	muscle
45	chr3:49027200-49028200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr3:49027200-49028200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr3:49027200-49028200	Active TSS	Breast Myoepithelial Primary Cells	Breast
48	chr3:49027200-49028200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr3:49027200-49028200	Active TSS	Muscle Satellite Cultured Cells	--
50	chr3:49027200-49028200	Active TSS	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links