Variant report

Variant	rs74124226
Chromosome Location	chr1:172500523-172500524
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	POLR2A	chr1:172500513-172503382	K562	blood:	n/a	n/a
2	SREBP1	chr1:172500153-172503694	GM12878	blood:	n/a	n/a
3	POLR2A	chr1:172500436-172503590	PBDE	blood:	n/a	n/a
4	SIN3AK20	chr1:172500362-172503546	MCF-7	breast:	n/a	n/a
5	HCFC1	chr1:172500408-172504740	Hela-S3	cervix:	n/a	n/a
6	POLR2A	chr1:172500375-172503329	MCF10A-Er-Src	breast:	n/a	n/a
7	GATA3	chr1:172500280-172501033	SK-N-SH	brain:	n/a	chr1:172500762-172500772
8	GATA3	chr1:172500462-172500852	MCF-7	breast:	n/a	chr1:172500762-172500772
9	POLR2A	chr1:172500514-172503184	K562	blood:	n/a	n/a
10	GATA3	chr1:172500370-172500972	SK-N-SH	brain:	n/a	chr1:172500762-172500772
11	IRF1	chr1:172500475-172503215	K562	blood:	n/a	chr1:172502697-172502711 chr1:172502008-172502022 chr1:172502101-172502115 chr1:172502906-172502915 chr1:172501580-172501591 chr1:172501579-172501596 chr1:172502208-172502217 chr1:172501602-172501611 chr1:172501579-172501591 chr1:172501576-172501590

No.	Distal block	Cell Line	Cell type
1	chr1:172411084..172422561-chr1:172496524..172504623,44	MCF-7	breast:
2	chr1:172486127..172488704-chr1:172497575..172501072,3	MCF-7	breast:
3	chr1:172396812..172398792-chr1:172499531..172501174,2	MCF-7	breast:
4	chr1:172499065..172502708-chr1:172575408..172578949,3	K562	blood:
5	chr1:172440495..172444630-chr1:172497465..172500697,4	MCF-7	breast:
6	chr1:172398685..172401320-chr1:172498374..172501094,2	MCF-7	breast:
7	chr1:172412087..172424934-chr1:172497120..172505334,59	MCF-7	breast:
8	chr1:172480445..172482424-chr1:172499752..172501373,2	K562	blood:
9	chr1:172410326..172414934-chr1:172499314..172504781,7	K562	blood:

Variant related genes	Relation type
SUCO	TF binding region
ENSG00000094975	Chromatin interaction
ENSG00000180999	Chromatin interaction
ENSG00000135845	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs2472551	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2516063	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55678532	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56884575	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57117081	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57600271	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58481917	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58899638	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60345777	1.00[AMR][1000 genomes]
rs60485575	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6683359	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124228	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124231	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124232	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124235	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124236	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124239	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124241	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124242	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124244	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124245	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124248	1.00[AMR][1000 genomes]
rs74124250	1.00[AMR][1000 genomes]
rs74124251	1.00[AMR][1000 genomes]
rs74124253	1.00[AMR][1000 genomes]
rs74124255	1.00[AMR][1000 genomes]
rs74124256	1.00[AMR][1000 genomes]
rs74124257	1.00[AMR][1000 genomes]
rs74124258	1.00[AMR][1000 genomes]
rs74124260	1.00[AMR][1000 genomes]
rs74124262	1.00[AMR][1000 genomes]
rs74124263	1.00[AMR][1000 genomes]

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172498200-172500600	Enhancers	HepG2	liver
2	chr1:172498200-172501200	Enhancers	Placenta Amnion	Placenta Amnion
3	chr1:172498400-172500600	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr1:172499000-172500600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr1:172499200-172500800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr1:172499400-172500600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:172499400-172500600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr1:172499600-172500600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:172499600-172500600	Weak transcription	Hela-S3	cervix
10	chr1:172499800-172501200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:172500200-172500600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr1:172500200-172500600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr1:172500200-172500800	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr1:172500400-172500600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr1:172500400-172500600	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr1:172500400-172500600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr1:172500400-172500600	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr1:172500400-172500600	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr1:172500400-172500600	Enhancers	Primary B cells from cord blood	blood
20	chr1:172500400-172500600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr1:172500400-172500600	Enhancers	Muscle Satellite Cultured Cells	--
22	chr1:172500400-172500600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr1:172500400-172500600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr1:172500400-172500600	Enhancers	Brain Substantia Nigra	brain
25	chr1:172500400-172500600	Enhancers	Duodenum Smooth Muscle	Duodenum
26	chr1:172500400-172500600	Enhancers	Fetal Muscle Leg	muscle
27	chr1:172500400-172500600	Enhancers	Fetal Thymus	thymus
28	chr1:172500400-172500600	Enhancers	Rectal Mucosa Donor 29	rectum
29	chr1:172500400-172500600	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr1:172500400-172500600	Bivalent Enhancer	Dnd41	blood
31	chr1:172500400-172500600	Enhancers	HMEC	breast
32	chr1:172500400-172500600	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr1:172500400-172500600	Flanking Active TSS	NHDF-Ad	bronchial
34	chr1:172500400-172500600	Enhancers	NHEK	skin
35	chr1:172500400-172500600	Active TSS	Osteobl	bone
36	chr1:172500400-172500800	Enhancers	Primary hematopoietic stem cells	blood
37	chr1:172500400-172500800	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr1:172500400-172500800	Enhancers	Liver	Liver
39	chr1:172500400-172500800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
40	chr1:172500400-172500800	Enhancers	Fetal Heart	heart
41	chr1:172500400-172500800	Enhancers	Fetal Intestine Large	intestine
42	chr1:172500400-172500800	Enhancers	Stomach Smooth Muscle	stomach
43	chr1:172500400-172500800	Enhancers	HUVEC	blood vessel
44	chr1:172500400-172501000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr1:172500400-172501000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr1:172500400-172501000	Enhancers	Fetal Intestine Small	intestine
47	chr1:172500400-172501000	Flanking Active TSS	K562	blood
48	chr1:172500400-172501000	Flanking Active TSS	NHLF	lung
49	chr1:172500400-172501400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr1:172500400-172502400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links