Variant report

Variant	rs8029538
Chromosome Location	chr15:49463215-49463216
allele	C/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	POLR2A	chr15:49461990-49464280	K562	blood:	n/a	n/a
2	MYC	chr15:49462003-49463251	NB4	blood:	n/a	chr15:49462709-49462718 chr15:49462222-49462233 chr15:49462707-49462720 chr15:49462708-49462719
3	YY1	chr15:49463171-49463578	K562	blood:	n/a	n/a
4	IRF1	chr15:49461776-49463264	K562	blood:	n/a	chr15:49462129-49462143
5	POLR2A	chr15:49462882-49463260	K562	blood:	n/a	n/a
6	MYC	chr15:49461964-49463465	K562	blood:	n/a	chr15:49462709-49462718 chr15:49462222-49462233 chr15:49462707-49462720 chr15:49462708-49462719
7	POLR2A	chr15:49461965-49463671	K562	blood:	n/a	n/a
8	POLR2A	chr15:49461944-49463814	K562	blood:	n/a	n/a
9	YY1	chr15:49463069-49463295	K562	blood:	n/a	n/a
10	RCOR1	chr15:49461998-49463297	K562	blood:	n/a	n/a
11	POLR2A	chr15:49461893-49463296	HL-60	blood:	n/a	n/a
12	POLR2A	chr15:49463203-49463221	Hela-S3	cervix:	n/a	n/a
13	POLR2A	chr15:49461978-49463706	K562	blood:	n/a	n/a
14	TAF1	chr15:49462994-49463612	K562	blood:	n/a	n/a
15	POLR2A	chr15:49461868-49463258	H1-hESC	embryonic stem cell:	n/a	n/a
16	POLR2A	chr15:49462993-49463218	HepG2	liver:	n/a	n/a
17	PML	chr15:49461911-49463270	K562	blood:	n/a	n/a
18	MXI1	chr15:49461387-49463278	IMR90	lung:	n/a	chr15:49462708-49462717 chr15:49462710-49462719
19	REST	chr15:49461938-49463344	HL-60	blood:	n/a	chr15:49462403-49462413
20	POLR2A	chr15:49461960-49463694	Hela-S3	cervix:	n/a	n/a
21	MYC	chr15:49461974-49463343	K562	blood:	n/a	chr15:49462709-49462718 chr15:49462222-49462233 chr15:49462707-49462720 chr15:49462708-49462719
22	YY1	chr15:49463030-49463307	A549	lung:	n/a	n/a
23	ZNF384	chr15:49461858-49464317	K562	blood:	n/a	n/a
24	EP300	chr15:49461989-49463265	K562	blood:	n/a	chr15:49462373-49462389 chr15:49462823-49462831 chr15:49462807-49462821
25	MXI1	chr15:49461500-49463318	SK-N-SH	brain:	n/a	chr15:49462708-49462717 chr15:49462710-49462719
26	POLR2A	chr15:49463215-49463217	MCF-7	breast:	n/a	n/a
27	IRF1	chr15:49461897-49463338	K562	blood:	n/a	chr15:49462129-49462143
28	UBTF	chr15:49462116-49463819	K562	blood:	n/a	n/a
29	MYC	chr15:49461771-49463358	K562	blood:	n/a	chr15:49462709-49462718 chr15:49462222-49462233 chr15:49462707-49462720 chr15:49462708-49462719
30	TBP	chr15:49461865-49464281	K562	blood:	n/a	n/a
31	YY1	chr15:49463037-49463480	H1-hESC	embryonic stem cell:	n/a	n/a
32	MAX	chr15:49462041-49463256	Hela-S3	cervix:	n/a	chr15:49462709-49462718 chr15:49462222-49462233 chr15:49462707-49462720 chr15:49462708-49462719
33	POLR2A	chr15:49462054-49463859	K562	blood:	n/a	n/a
34	POLR2A	chr15:49461897-49463789	K562	blood:	n/a	n/a
35	ARID3A	chr15:49461998-49463250	K562	blood:	n/a	chr15:49462939-49462955
36	POLR2A	chr15:49462058-49463602	NB4	blood:	n/a	n/a
37	HEY1	chr15:49462023-49463842	K562	blood:	n/a	chr15:49462709-49462718

No.	Distal block	Cell Line	Cell type
1	chr15:49462491..49464314-chr15:49469234..49471225,2	MCF-7	breast:
2	chr15:49287770..49290025-chr15:49461376..49464212,2	K562	blood:
3	chr15:49462876..49466490-chr15:49481891..49484473,3	K562	blood:
4	chr15:49446083..49452367-chr15:49460693..49464702,19	K562	blood:
5	chr15:49101548..49103539-chr15:49462914..49464640,2	K562	blood:
6	chr15:49461247..49464422-chr15:49530030..49534036,3	K562	blood:
7	chr15:49446471..49449731-chr15:49460521..49465602,13	MCF-7	breast:
8	chr15:49337641..49340367-chr15:49461061..49463741,3	MCF-7	breast:
9	chr15:49443824..49452367-chr15:49460648..49465189,20	K562	blood:

Variant related genes	Relation type
MIR4716	TF binding region
ENSG00000166200	Chromatin interaction
ENSG00000207105	Chromatin interaction
ENSG00000103995	Chromatin interaction
ENSG00000259700	Chromatin interaction
ENSG00000138593	Chromatin interaction
ENSG00000259467	Chromatin interaction
ENSG00000156958	Chromatin interaction
ENSG00000259545	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11070685	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs12232354	0.91[CHB][hapmap];0.92[JPT][hapmap]
rs12898461	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12898877	0.89[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12910584	0.92[CHB][hapmap];0.92[JPT][hapmap];0.80[ASN][1000 genomes]
rs12915792	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12916078	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34505850	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35274049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs478500	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs577614	1.00[CEU][hapmap];0.81[CHB][hapmap];0.93[EUR][1000 genomes]
rs6493351	0.98[EUR][1000 genomes]
rs6493366	0.89[CEU][hapmap]
rs6493367	0.89[CEU][hapmap]
rs71394957	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71467666	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71467668	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7166491	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7169304	0.96[ASN][1000 genomes]
rs7177959	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs8026364	0.83[EUR][1000 genomes]
rs8036293	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8040116	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs9806362	0.83[EUR][1000 genomes]

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49461800-49463400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr15:49461800-49463400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr15:49461800-49463600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
4	chr15:49461800-49463800	Active TSS	Rectal Mucosa Donor 29	rectum
5	chr15:49461800-49464000	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr15:49461800-49464400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:49462000-49463400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr15:49462000-49463400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr15:49462000-49463400	Active TSS	Breast Myoepithelial Primary Cells	Breast
10	chr15:49462000-49463400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
11	chr15:49462000-49463400	Active TSS	Colonic Mucosa	Colon
12	chr15:49462000-49463400	Active TSS	Rectal Mucosa Donor 31	rectum
13	chr15:49462000-49463400	Active TSS	Skeletal Muscle Male	skeletal muscle
14	chr15:49462000-49463400	Flanking Active TSS	HUVEC	blood vessel
15	chr15:49462000-49463600	Active TSS	Muscle Satellite Cultured Cells	--
16	chr15:49462000-49463600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr15:49462000-49463600	Active TSS	HSMM	muscle
18	chr15:49462000-49463800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:49462000-49463800	Active TSS	Brain Cingulate Gyrus	brain
20	chr15:49462000-49464400	Active TSS	GM12878-XiMat	blood
21	chr15:49462200-49463400	Active TSS	HUES64 Cell Line	embryonic stem cell
22	chr15:49462200-49463400	Active TSS	Fetal Intestine Large	intestine
23	chr15:49462200-49463400	Active TSS	Fetal Intestine Small	intestine
24	chr15:49462200-49463400	Active TSS	Pancreas	Pancrea
25	chr15:49462200-49463400	Active TSS	NHEK	skin
26	chr15:49462200-49463600	Active TSS	Primary T killer memory cells from peripheral blood	blood
27	chr15:49462200-49463600	Active TSS	Pancreatic Islets	Pancreatic Islet
28	chr15:49462200-49463600	Active TSS	Osteobl	bone
29	chr15:49462200-49463800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr15:49462200-49463800	Active TSS	Duodenum Mucosa	Duodenum
31	chr15:49462200-49463800	Active TSS	NH-A	brain
32	chr15:49462200-49464000	Active TSS	A549	lung
33	chr15:49462200-49465800	Active TSS	K562	blood
34	chr15:49462400-49463400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr15:49462400-49463400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
36	chr15:49462400-49463400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:49462400-49463400	Active TSS	Stomach Smooth Muscle	stomach
38	chr15:49462400-49463400	Active TSS	HepG2	liver
39	chr15:49462400-49463600	Active TSS	Primary hematopoietic stem cells short term culture	blood
40	chr15:49462400-49463600	Active TSS	Dnd41	blood
41	chr15:49462400-49463800	Active TSS	NHDF-Ad	bronchial
42	chr15:49462400-49463800	Active TSS	NHLF	lung
43	chr15:49462600-49463400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr15:49462800-49463400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
45	chr15:49462800-49464400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr15:49463000-49463400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
47	chr15:49463000-49463400	Flanking Active TSS	Primary T cells from cord blood	blood
48	chr15:49463000-49463400	Weak transcription	Esophagus	oesophagus
49	chr15:49463000-49463800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:49463000-49463800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links