Variant report

Variant	rs17541267
Chromosome Location	chr5:16591425-16591426
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	chr5:16581461..16583771-chr5:16590436..16593206,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs173972	0.91[CEU][hapmap]
rs2447809	0.93[CEU][hapmap]
rs2447810	0.93[CEU][hapmap]
rs2447812	0.91[CEU][hapmap]
rs2447813	0.93[CEU][hapmap]
rs2447816	0.93[CEU][hapmap]
rs2447818	0.93[CEU][hapmap]
rs2451848	0.93[CEU][hapmap]
rs2451849	0.93[CEU][hapmap]
rs2451850	0.93[CEU][hapmap]
rs2451852	0.93[CEU][hapmap]
rs2451855	0.93[CEU][hapmap]
rs2451856	0.83[CEU][hapmap]
rs2560824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2560825	0.93[CEU][hapmap]
rs2592038	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2617419	0.93[CEU][hapmap]
rs2927607	0.93[CEU][hapmap]
rs403565	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs431154	0.93[CEU][hapmap]
rs448021	0.93[CEU][hapmap]

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	nsv881187	chr5:16514269-16654960	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16543200-16591600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr5:16575600-16591600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:16578400-16606800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr5:16579400-16593200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:16581000-16598400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr5:16581400-16593200	Weak transcription	Right Ventricle	heart
7	chr5:16581400-16596000	Weak transcription	Fetal Brain Female	brain
8	chr5:16583400-16599600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr5:16584400-16592400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr5:16585400-16615600	Weak transcription	Primary B cells from cord blood	blood
11	chr5:16585600-16600000	Weak transcription	Gastric	stomach
12	chr5:16585800-16605000	Weak transcription	Fetal Intestine Large	intestine
13	chr5:16586000-16594800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr5:16586600-16593200	Weak transcription	Brain Germinal Matrix	brain
15	chr5:16587400-16591600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr5:16587400-16593200	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr5:16587400-16600400	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr5:16587600-16596400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr5:16587600-16598200	Weak transcription	Fetal Intestine Small	intestine
20	chr5:16588600-16593200	Weak transcription	Left Ventricle	heart
21	chr5:16588800-16595400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr5:16589000-16593000	Weak transcription	Brain Angular Gyrus	brain
23	chr5:16589000-16593400	Weak transcription	Stomach Mucosa	stomach
24	chr5:16589000-16614800	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr5:16589200-16591600	Weak transcription	Brain Anterior Caudate	brain
26	chr5:16590000-16591800	Weak transcription	Right Atrium	heart
27	chr5:16590000-16593800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr5:16590200-16593200	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr5:16590200-16598800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr5:16590200-16616000	Weak transcription	Pancreas	Pancrea
31	chr5:16590400-16593400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr5:16590400-16597800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr5:16590800-16594200	Enhancers	Primary T helper cells PMA-I stimulated	--
34	chr5:16590800-16597000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr5:16591000-16591600	Enhancers	Adipose Nuclei	Adipose
36	chr5:16591000-16591600	Weak transcription	Thymus	Thymus
37	chr5:16591000-16592600	Enhancers	Fetal Brain Male	brain
38	chr5:16591000-16595000	Enhancers	Brain Substantia Nigra	brain
39	chr5:16591200-16592000	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr5:16591200-16593200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr5:16591400-16591600	Enhancers	HUES6 Cell Line	embryonic stem cell
42	chr5:16591400-16592000	Enhancers	iPS-18 Cell Line	embryonic stem cell
43	chr5:16591400-16592000	Enhancers	Primary T cells fromperipheralblood	blood
44	chr5:16591400-16592200	Enhancers	Fetal Heart	heart
45	chr5:16591400-16592400	Enhancers	Primary T cells from cord blood	blood
46	chr5:16591400-16594200	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr5:16591400-16594400	Enhancers	Brain Cingulate Gyrus	brain
48	chr5:16591400-16594400	Enhancers	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links