Variant report

Variant	rs16962272
Chromosome Location	chr15:49576596-49576597
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:49572227..49573901-chr15:49576450..49578887,2	MCF-7	breast:

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs16962180	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7172818	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039220	chr15:49492509-49644261	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1039368	chr15:49566094-49764066	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49520400-49595600	Weak transcription	Right Ventricle	heart
2	chr15:49540000-49577600	Weak transcription	Small Intestine	intestine
3	chr15:49541600-49595800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr15:49557200-49611800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr15:49557800-49607600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:49558000-49624400	Weak transcription	Esophagus	oesophagus
7	chr15:49558200-49611800	Weak transcription	Colonic Mucosa	Colon
8	chr15:49559200-49581400	Weak transcription	Spleen	Spleen
9	chr15:49561000-49600800	Weak transcription	Pancreas	Pancrea
10	chr15:49561600-49577800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr15:49562000-49595800	Weak transcription	HepG2	liver
12	chr15:49562200-49626000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr15:49563600-49611000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr15:49563800-49583200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr15:49564000-49580400	Weak transcription	Brain Substantia Nigra	brain
16	chr15:49564000-49580600	Weak transcription	Brain Cingulate Gyrus	brain
17	chr15:49564000-49586200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr15:49564000-49593600	Weak transcription	HMEC	breast
19	chr15:49564200-49593600	Weak transcription	Lung	lung
20	chr15:49565400-49583600	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr15:49565400-49602000	Weak transcription	Fetal Heart	heart
22	chr15:49565600-49583200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr15:49565800-49585200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr15:49566000-49585200	Weak transcription	GM12878-XiMat	blood
25	chr15:49566000-49586200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr15:49566200-49611800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr15:49566400-49580400	Weak transcription	Brain Hippocampus Middle	brain
28	chr15:49566400-49595600	Weak transcription	Gastric	stomach
29	chr15:49566600-49623200	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr15:49569000-49580800	Weak transcription	Brain Angular Gyrus	brain
31	chr15:49570400-49578400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr15:49571000-49578600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr15:49572000-49583600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:49572000-49595800	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr15:49572800-49600800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr15:49573400-49578200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr15:49573400-49582800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr15:49573600-49579800	Strong transcription	Primary T cells from cord blood	blood
39	chr15:49573600-49613000	Weak transcription	Brain Germinal Matrix	brain
40	chr15:49573800-49578400	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr15:49573800-49578600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr15:49573800-49588400	Weak transcription	Fetal Kidney	kidney
43	chr15:49573800-49622200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr15:49574000-49577400	Strong transcription	Primary hematopoietic stem cells	blood
45	chr15:49574000-49578200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr15:49574000-49578400	Strong transcription	Primary B cells from peripheral blood	blood
47	chr15:49574000-49580400	Weak transcription	Fetal Brain Male	brain
48	chr15:49574000-49588400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr15:49574200-49576800	Weak transcription	Fetal Brain Female	brain
50	chr15:49574200-49577400	Strong transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links