Variant report

Variant	rs6869039
Chromosome Location	chr5:16553268-16553269
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs16868794	0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6554932	0.85[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6859637	0.82[YRI][hapmap];0.87[AMR][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	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:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16522400-16567400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr5:16539200-16554400	Weak transcription	Small Intestine	intestine
3	chr5:16542600-16567200	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr5:16543200-16591600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr5:16543600-16589800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr5:16544000-16562400	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr5:16544200-16565200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr5:16545000-16574600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr5:16546200-16559400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr5:16549200-16554400	Weak transcription	Fetal Intestine Large	intestine
11	chr5:16549200-16569000	Weak transcription	Left Ventricle	heart
12	chr5:16549200-16580200	Weak transcription	Gastric	stomach
13	chr5:16550400-16556800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr5:16550400-16557400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr5:16550600-16553400	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr5:16550800-16554200	Weak transcription	Pancreas	Pancrea
17	chr5:16550800-16555400	Weak transcription	Primary B cells from peripheral blood	blood
18	chr5:16551600-16553400	Enhancers	Fetal Heart	heart
19	chr5:16551600-16553400	Enhancers	HSMMtube	muscle
20	chr5:16551800-16553400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
21	chr5:16551800-16553800	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr5:16552000-16553400	Enhancers	Brain Cingulate Gyrus	brain
23	chr5:16552200-16553400	Enhancers	Brain Substantia Nigra	brain
24	chr5:16552200-16553400	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr5:16552200-16553600	Enhancers	Brain Hippocampus Middle	brain
26	chr5:16552200-16554400	Enhancers	Brain Anterior Caudate	brain
27	chr5:16552400-16553600	Enhancers	Rectal Mucosa Donor 31	rectum
28	chr5:16552400-16559200	Weak transcription	Primary T cells from cord blood	blood
29	chr5:16552600-16553400	Enhancers	HUES48 Cell Line	embryonic stem cell
30	chr5:16552600-16553400	Enhancers	Duodenum Mucosa	Duodenum
31	chr5:16552600-16553400	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr5:16552800-16553400	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr5:16552800-16553400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr5:16552800-16553400	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr5:16552800-16553400	Enhancers	Fetal Kidney	kidney
36	chr5:16552800-16553400	Enhancers	Rectal Mucosa Donor 29	rectum
37	chr5:16553000-16568600	Weak transcription	NHDF-Ad	bronchial
38	chr5:16553000-16573400	Weak transcription	Fetal Intestine Small	intestine
39	chr5:16553200-16553400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
40	chr5:16553200-16553600	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr5:16553200-16556800	Weak transcription	Brain Angular Gyrus	brain
42	chr5:16553200-16557200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr5:16553200-16562000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr5:16553200-16564600	Weak transcription	Psoas Muscle	Psoas
45	chr5:16553200-16564600	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links