Variant report

Variant	rs11862886
Chromosome Location	chr16:82043125-82043126
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11859929	0.90[AFR][1000 genomes]
rs11861598	0.85[AFR][1000 genomes]
rs13333401	0.82[AFR][1000 genomes]
rs13336862	0.90[AFR][1000 genomes]
rs16956212	0.90[AFR][1000 genomes]
rs16956238	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28593579	0.90[AFR][1000 genomes]
rs28676286	0.90[AFR][1000 genomes]
rs28709269	0.90[AFR][1000 genomes]
rs60624959	1.00[AMR][1000 genomes]
rs7194931	0.89[AFR][1000 genomes]
rs9926028	0.90[AFR][1000 genomes]
rs9926471	0.82[AFR][1000 genomes]
rs9926701	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv907012	chr16:81986896-82115148	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1058368	chr16:82029516-82152788	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv532598	chr16:82034475-82738733	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 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	chr16:82027400-82044200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr16:82030000-82044000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr16:82030600-82044200	Weak transcription	Small Intestine	intestine
4	chr16:82031000-82044400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr16:82032000-82043400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr16:82032000-82044400	Weak transcription	Colon Smooth Muscle	Colon
7	chr16:82032000-82044400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr16:82032400-82044400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr16:82033800-82044200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr16:82034000-82044200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr16:82034000-82044400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr16:82034200-82043800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr16:82034800-82044200	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr16:82034800-82044200	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr16:82038200-82043800	Weak transcription	Pancreas	Pancrea
16	chr16:82039200-82044000	Weak transcription	NHEK	skin
17	chr16:82039800-82044000	Weak transcription	Fetal Kidney	kidney
18	chr16:82041000-82043400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr16:82041400-82043800	Weak transcription	HMEC	breast
20	chr16:82041400-82044000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr16:82041600-82043800	Weak transcription	Primary T cells from cord blood	blood
22	chr16:82042200-82043200	ZNF genes & repeats	Duodenum Mucosa	Duodenum
23	chr16:82042200-82043600	ZNF genes & repeats	Fetal Intestine Small	intestine
24	chr16:82042200-82044200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr16:82042400-82043200	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr16:82042400-82043200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
27	chr16:82042400-82043200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr16:82042400-82043200	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
29	chr16:82042400-82043200	ZNF genes & repeats	Esophagus	oesophagus
30	chr16:82042400-82043200	ZNF genes & repeats	Fetal Stomach	stomach
31	chr16:82042400-82043200	ZNF genes & repeats	Thymus	Thymus
32	chr16:82042400-82043200	ZNF genes & repeats	Spleen	Spleen
33	chr16:82042400-82043400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr16:82042600-82043200	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
35	chr16:82042600-82043200	ZNF genes & repeats	Aorta	Aorta
36	chr16:82042600-82043200	ZNF genes & repeats	Liver	Liver
37	chr16:82042600-82043200	ZNF genes & repeats	Gastric	stomach
38	chr16:82042600-82043200	ZNF genes & repeats	A549	lung
39	chr16:82042600-82044000	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr16:82042800-82043800	Weak transcription	Fetal Intestine Large	intestine
41	chr16:82043000-82043400	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr16:82043000-82043800	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr16:82043000-82044000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr16:82043000-82044400	Weak transcription	Colonic Mucosa	Colon
45	chr16:82043000-82044400	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links