Variant report

Variant	rs62284023
Chromosome Location	chr3:150300758-150300759
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:150262857..150265948-chr3:150299481..150302314,3	K562	blood:
2	chr3:150298264..150303206-chr3:150320117..150322472,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction
ENSG00000144895	Chromatin interaction
ENSG00000120742	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs3745	0.90[EUR][1000 genomes]
rs4681208	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4681636	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62269086	0.88[EUR][1000 genomes]
rs62269087	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62269088	1.00[AFR][1000 genomes]
rs62269099	1.00[AFR][1000 genomes]
rs62269100	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62269102	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62283992	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62283993	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62283994	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62284024	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62284025	1.00[AFR][1000 genomes]
rs67548051	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6794400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6802114	0.90[EUR][1000 genomes]
rs73169829	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73169833	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150265200-150302800	Weak transcription	Gastric	stomach
2	chr3:150265400-150305800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:150265600-150304200	Weak transcription	Fetal Brain Male	brain
4	chr3:150265600-150320600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:150265600-150320600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:150266000-150304600	Weak transcription	Fetal Heart	heart
7	chr3:150266000-150307600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:150266400-150302200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:150268600-150304000	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr3:150274000-150303000	Weak transcription	Pancreas	Pancrea
11	chr3:150277200-150305200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:150278000-150306800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:150278200-150304800	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr3:150278400-150306400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:150279400-150303800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr3:150280000-150304800	Strong transcription	Fetal Thymus	thymus
17	chr3:150280200-150304400	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:150280200-150304600	Strong transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:150280200-150304800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr3:150280200-150305000	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr3:150280200-150307800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:150281400-150303800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:150283200-150305200	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr3:150286600-150305400	Weak transcription	Colonic Mucosa	Colon
25	chr3:150289600-150303800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr3:150289800-150303600	Strong transcription	Hela-S3	cervix
27	chr3:150289800-150304000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
28	chr3:150291600-150306200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
29	chr3:150291800-150303000	Strong transcription	Primary B cells from cord blood	blood
30	chr3:150291800-150304000	Strong transcription	Dnd41	blood
31	chr3:150292000-150304800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr3:150292400-150304000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr3:150293200-150303800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:150293400-150302800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr3:150293400-150303800	Strong transcription	Adipose Nuclei	Adipose
36	chr3:150293400-150303800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr3:150293400-150304800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr3:150293800-150304000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr3:150294000-150303800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:150294200-150302800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr3:150294200-150304000	Strong transcription	Primary T helper cells PMA-I stimulated	--
42	chr3:150294200-150304400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr3:150294200-150305000	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr3:150294200-150314600	Weak transcription	Psoas Muscle	Psoas
45	chr3:150294400-150302800	Weak transcription	Aorta	Aorta
46	chr3:150294400-150306600	Weak transcription	Brain Angular Gyrus	brain
47	chr3:150294600-150302800	Weak transcription	Spleen	Spleen
48	chr3:150295000-150300800	Weak transcription	Brain Germinal Matrix	brain
49	chr3:150295000-150303200	Weak transcription	Brain Cingulate Gyrus	brain
50	chr3:150295200-150300800	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links