Variant report

Variant	rs57800049
Chromosome Location	chr3:56665015-56665016
allele	A/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	STAT3	chr3:56665008-56665385	MCF10A-Er-Src	breast:	n/a	chr3:56665158-56665169 chr3:56665157-56665171
2	STAT3	chr3:56665005-56665336	MCF10A-Er-Src	breast:	n/a	chr3:56665158-56665169 chr3:56665157-56665171

Variant related genes	Relation type
FAM208A	TF binding region

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

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

rs_ID	r²[population]
rs10212341	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1045926	0.82[AMR][1000 genomes]
rs10865999	0.82[AMR][1000 genomes]
rs10866000	0.81[AMR][1000 genomes]
rs11130536	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11130538	0.82[AMR][1000 genomes]
rs11714608	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11714897	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11715395	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11921326	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12490749	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17216740	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2004199	0.80[AMR][1000 genomes]
rs2029464	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2291499	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2291501	0.82[AMR][1000 genomes]
rs2317133	0.82[AMR][1000 genomes]
rs2317245	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3732512	0.85[AMR][1000 genomes]
rs4681963	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6445805	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6445806	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6774323	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6802051	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7612599	0.82[AMR][1000 genomes]
rs7629559	0.80[AMR][1000 genomes]
rs7646924	0.82[ASN][1000 genomes]
rs9823108	0.84[AMR][1000 genomes]
rs9827472	0.84[ASN][1000 genomes]
rs9840528	0.82[AMR][1000 genomes]
rs9845096	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9845655	0.81[AMR][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56640800-56695400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:56642800-56713400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:56644400-56686400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:56644600-56665600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:56644600-56668600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:56644800-56669800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:56644800-56708200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr3:56645400-56667200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:56645400-56705200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr3:56645600-56665800	Strong transcription	Hela-S3	cervix
11	chr3:56646600-56669000	Weak transcription	Small Intestine	intestine
12	chr3:56646800-56673600	Weak transcription	Right Ventricle	heart
13	chr3:56647000-56666800	Weak transcription	Lung	lung
14	chr3:56647000-56672200	Weak transcription	Gastric	stomach
15	chr3:56647400-56707400	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr3:56647400-56707800	Strong transcription	Fetal Thymus	thymus
17	chr3:56647800-56668400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:56651400-56702000	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr3:56652800-56701400	Weak transcription	Psoas Muscle	Psoas
20	chr3:56654000-56666200	Weak transcription	Ovary	ovary
21	chr3:56654600-56666800	Weak transcription	Colonic Mucosa	Colon
22	chr3:56654600-56666800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr3:56655000-56666200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:56656200-56683000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:56657400-56683800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr3:56657600-56675800	Strong transcription	Fetal Muscle Leg	muscle
27	chr3:56657800-56678000	Weak transcription	Fetal Brain Male	brain
28	chr3:56658000-56666800	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr3:56658400-56667400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr3:56658400-56668200	Strong transcription	Fetal Muscle Trunk	muscle
31	chr3:56659000-56666600	Weak transcription	Fetal Heart	heart
32	chr3:56659000-56666800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr3:56659000-56673000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr3:56659200-56666600	Weak transcription	Brain Substantia Nigra	brain
35	chr3:56659200-56666800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr3:56659400-56666000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr3:56659400-56676200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr3:56659600-56666000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr3:56659600-56666800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr3:56659600-56667600	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr3:56659600-56668200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr3:56660000-56666800	Weak transcription	Spleen	Spleen
43	chr3:56660600-56668000	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr3:56660600-56670800	Weak transcription	Fetal Brain Female	brain
45	chr3:56660800-56666400	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr3:56661200-56665800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr3:56661400-56710600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr3:56661800-56674800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr3:56662200-56666800	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr3:56662200-56666800	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links