Variant report

Variant	rs17239283
Chromosome Location	chr8:58928649-58928650
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:58926811..58928772-chr8:58931481..58933611,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs13263290	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs13271679	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16922941	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs17176389	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17239590	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17835765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34040020	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35055955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35160448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35338825	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35623322	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35719782	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6991555	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs71519494	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][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	nsv831324	chr8:58844151-59045309	Flanking Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:58908400-58928800	Weak transcription	Esophagus	oesophagus
2	chr8:58908400-58929000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr8:58908600-58942800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr8:58908800-58929200	Weak transcription	Brain Substantia Nigra	brain
5	chr8:58909400-58928800	Weak transcription	Fetal Intestine Large	intestine
6	chr8:58909400-58943000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr8:58913400-58929000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr8:58914200-58929000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr8:58916400-58929000	Weak transcription	NHDF-Ad	bronchial
10	chr8:58916400-58929200	Weak transcription	Brain Hippocampus Middle	brain
11	chr8:58916400-58934600	Weak transcription	Brain Anterior Caudate	brain
12	chr8:58916600-58929000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr8:58916600-58929200	Weak transcription	Osteobl	bone
14	chr8:58916800-58928800	Weak transcription	Psoas Muscle	Psoas
15	chr8:58916800-58929200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr8:58920000-58929000	Weak transcription	Pancreas	Pancrea
17	chr8:58920400-58928800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr8:58920600-58929000	Weak transcription	Stomach Mucosa	stomach
19	chr8:58921600-58934200	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr8:58921800-58928800	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr8:58921800-58937400	Weak transcription	HSMMtube	muscle
22	chr8:58922000-58928800	Weak transcription	Colon Smooth Muscle	Colon
23	chr8:58923400-58929000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr8:58923400-58937200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr8:58924400-58946400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr8:58924600-58929000	Weak transcription	Adipose Nuclei	Adipose
27	chr8:58924600-58929200	Weak transcription	Ovary	ovary
28	chr8:58926200-58928800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr8:58926600-58928800	Weak transcription	Lung	lung
30	chr8:58926600-58928800	Weak transcription	Stomach Smooth Muscle	stomach
31	chr8:58926600-58929000	Weak transcription	Fetal Brain Female	brain
32	chr8:58926600-58934400	Weak transcription	Aorta	Aorta
33	chr8:58926600-58942000	Weak transcription	HSMM	muscle
34	chr8:58926800-58928800	Weak transcription	Brain Germinal Matrix	brain
35	chr8:58926800-58929000	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr8:58926800-58937600	Weak transcription	Spleen	Spleen
37	chr8:58927000-58928800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr8:58927000-58928800	Weak transcription	Fetal Muscle Leg	muscle
39	chr8:58927000-58928800	Weak transcription	Fetal Stomach	stomach
40	chr8:58927000-58929000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr8:58927000-58929000	Weak transcription	Fetal Muscle Trunk	muscle
42	chr8:58927000-58929000	Weak transcription	Gastric	stomach
43	chr8:58927000-58943000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr8:58927000-58948000	Weak transcription	Fetal Brain Male	brain
45	chr8:58927200-58928800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr8:58927200-58928800	Weak transcription	Left Ventricle	heart
47	chr8:58927200-58928800	Weak transcription	Right Ventricle	heart
48	chr8:58927200-58929000	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr8:58927200-58929000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr8:58927200-58929200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links